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  • Instrumentation
    • General
      • FAQ
        • Are the RFID tags for the flow cell and reagent cartridge linked?
        • Differences in the percent clusters passing filter on patterned and non patterned flow cells
        • End of Life Schedule for HiSeq Platforms
        • How is PhiX alignment calculated by RTA (Real Time Analysis)?
        • How to determine the appropriate kit configuration to use based on the data needed?
        • Illumina reagent shipment packaging FAQs
        • Is it possible to remove a library pool from a sequencing reagent cartridge?
        • Procedures for cleaning flow cells for Illumina sequencers
        • Reagent Expiration Date Definition
        • Secure communication protocols on Illumina systems
        • Steps if insufficient wash solution was used in a manual wash on the NextSeq 500/550 or MiniSeq
        • What are Illumina's Qualification Service Offerings
        • Which sequencers use patterned vs. nonpatterned flow cells?
      • Reference Material
        • Adding Illumina to TeamViewer allowlist
        • Antivirus recommendations for Illumina Sequencing Instruments
        • Approximate sizes of sequencing run output folders
        • Best practices for getting the lab back up and running after an extended shutdown
        • Best practices for low diversity sequencing on the NextSeq 500/550 and MiniSeq systems
        • Best practices for maintaining and cleaning Illumina sequencing system wash cartridges
        • Best practices for maintaining the computer on Illumina sequencing systems
        • Best practices to improve data yield when using patterned flow cells on the HiSeq 3000/4000/X
        • Bluekeep and DejaBlue two vulnerabilities of the Remote Desktop Protocol within Microsoft Windows
        • Calculating Percent Passing Filter for Patterned and Nonpatterned Flow Cells
        • Chemistry and Imaging on NovaSeq 6000
        • Cluster density considerations when migrating Illumina libraries between sequencing platforms
        • Cluster density guidelines for Illumina sequencing platforms using non patterned flow cells
        • Decontaminating Illumina instruments for novel coronavirus (2019 nCoV)
        • Diagnosing Suboptimal Clustering in Nonpatterned Flow Cells Video
        • Diagnosing Suboptimal Clustering in Patterned Flow Cells Video
        • Does my sequencing run look good?
        • End to end sequencing and microarray training at Illumina Solutions Centers in the Americas
        • Features of Illumina Advantage (IA former TG) product
        • Focus images on the MiniSeq and NextSeq 500/550
        • Group Policy Object (GPO) reports
        • Heat output specifications for Illumina sequencers
        • HiSeq 3000/4000 Introduction Support Webinar Video
        • How Do I Prepare for My Illumina Instrument Delivery? Video
        • How many cycles of SBS chemistry are in my kit?
        • How much PhiX spike in is recommended when sequencing low diversity libraries on Illumina platforms?
        • How to Clean Illumina Sequencer Wash Cartridges Video
        • How to Disable Cloud Login Feature on the MiSeq i100 and NovaSeq X Series
        • How to Requeue an Analysis on BaseSpace Sequence Hub When No Changes to the Sample Sheet are Needed
        • How to achieve more consistent cluster density on Illumina sequencing platforms
        • How to check .NET version on Windows instruments
        • How to connect benchtop instruments and Local Run Manager to a network location
        • How to disable and add exceptions to the Software Restriction Policies for TeamViewer in Windows 10
        • How to identify the IP and MAC address of a sequencing instrument
        • How to identify the UNC path of a network server or location.
        • How to import a pre existing index kits into Local Run Manager v3 and v4
        • How to interpret clusters passing filter in run metrics
        • How to make sure Universal Copy Service is configured to Log On as a standard (non admin) account
        • How to perform System Check on the NovaSeq X Series
        • How to requeue and import run data for reanalysis with Local Run Manager
        • How to restart RTA on HiSeq 2500 and MiSeq systems
        • How to restart a sequencer after a power outage?
        • How to set up a PhiX validation run with Local Run Manager
        • How to thaw and store sequencing reagents for optimal performance
        • How to update Windows 10 account credentials on Benchtop Instruments
        • IT Requirements for Implementing Illumina Proactive Video
        • Illumina 测序平台的最大读长
        • Illumina测序平台上每个测序步骤的运行时间预测
        • Illumina测序平台测试Run中PhiX的上机浓度
        • Illumina测序系统废液中甲酰胺的终浓度是多少?
        • Illumina非Pattern Flow Cell测序平台簇密度推荐指南
        • Impact of ammonium based cleaning products on sequencing run performance
        • Index color balancing for the NextSeq 500/550 and MiniSeq systems
        • Instrument Service Contract Plans
        • Instrument maintenance and shutdown procedures for extended site closures
        • Introducing TeamViewer for Remote Desktop Share with Illumina Support Teams
        • Introduction to Illumina Sequencing By Synthesis Support Webinar Video
        • Investigation of Log4j Vulnerability with Illumina ProActive Portal
        • Investigation of Log4j Vulnerability with Illumina instruments
        • Maximum read length for Illumina sequencing platforms
        • Network Output Path Requirements in Local Run Manager and Universal Copy Service
        • NextSeq500/550和Miniseq平台进行低多样性文库测序的最佳操作
        • NextSeq和MiniSeq测序系统上index混合的指导方针
        • PhiX loading concentrations for validation runs on Illumina sequencing platforms
        • Plotting %Occupied by %Pass Filter to optimize loading for the NovaSeq 6000 and iSeq 100 Video
        • Quality Scores for Next Generation Sequencing
        • Run time estimates for each sequencing step on Illumina sequencing platforms
        • Security updates to address Windows Print Spooler Remote Code Execution Vulnerability
        • Sequencing Analysis Viewer (SAV) A Beginner's Guide Support Webinar Video
        • Sequencing Considerations for Low Diversity Samples Support Webinar Video
        • Serial Number locations on Illumina sequencers
        • Sharing instrument performance data with Illumina Support
        • Shelf life for Illumina reagent products
        • System checks for Illumina sequencing platforms
        • Technical resources for the HiSeq 3000 and 4000 systems
        • Troubleshooting "Cannot initiate communication with Universal Copy Service" error
        • Troubleshooting "Could not find a part of the path" errors on the NextSeq500/550 and MiniSeq
        • Troubleshooting Bit Error on the NextSeq 500/550 and MiniSeq
        • Troubleshooting a blank BaseSpace screen or The request timestamp is in the future during run setup
        • Uninterruptible Power Supply (UPS) Models by Instrument
        • Using the MyIllumina dashboard to view instrument yield, Reads PF, and Q30 data as trends over time
        • What is nucleotide diversity and why is it important?
        • What is the final formamide concentration in the waste solution of Illumina sequencing systems?
        • Why sequencing 26 or more cycles in Read 1 is recommended
        • 为什么Read1测序读长推荐至少需要26个循环?
        • 什么是核苷酸多样性,它为什么十分重要?
        • 在Illumina平台进行低多样性文库测序时,应该掺入多少PhiX?
        • 场地长期关闭或仪器长期不用时illumina仪器的维护与关机程序
        • 如何在HiSeq 2500和MiSeq系统上重启RTA
        • 如何在Illumina测序平台上获得更稳定的簇密度
        • 如何在搭载Windows 7 Professional系统的Illumina 仪器上安装相应的扩展安全更新(ESU)程序?
        • 如何更新UCS和LRM在Windows10系统中的凭据 (针对装有NCS v4.0.1+, MNCS v2+, MCS v4+的平台)
        • 我所购买的SBS试剂盒最多能够满足多少个循环的测序?
        • 测序运行输出文件夹的近似大小
        • 通过% Occupied和% Pass Filter散点图优化NovaSeq 6000和iSeq 100上样浓度
      • Troubleshooting
        • AWS deprecation of TLS below v1.2 & impact to instruments connecting to Illumina Connected Services
        • Failed to load BaseSpace Cloud API URL from configuration error on the NextSeq 500/550 and MiniSeq
        • How to Troubleshoot a "no base calls are available for its lane(s)" error in Local Run Manager
        • How to change sbsuser credential from sbsadmin account on Windows instruments
        • How to requeue analysis using only an index 2 (i5) read
        • How to safely remove or eject external hard drives on Illumina platforms with Windows 10
        • How to troubleshoot a Database Backup Secret has not been set warning in Local Run Manager
        • How to troubleshoot unable to find patterned fiducials errors on the HiSeq 3000/4000 platforms
        • Investigating Network Data Copy Performance from Illumina Products on Linux OS
        • Mitigation of the 'Follina' vulnerability in Microsoft Support Diagnostic Tool (MSDT)
        • Optimizing Cluster Density Support Webinar Video
        • Plotting %Occupied by %PF to optimize loading for the NovaSeq X Series, MiSeq i100 Series, NovaSeq 6000, and iSeq 100
        • Supported versions of Server Message Block (SMB) on Illumina Platforms
        • Troubleshooting "Failed to communicate with RTA after 4 attempts" on the MiniSeq or NextSeq 500/550
        • Troubleshooting 'Recipe file does not exist at' errors when setting up 1.5B runs on the NovaSeq X Plus
        • Troubleshooting BaseSpace connectivity issues on sequencing instruments
        • Troubleshooting Blue Screen errors related to the CrowdStrike update
        • Troubleshooting Control Software stuck "Waiting for Safe State" on MiniSeq and NextSeq 500/550
        • Troubleshooting HTTP 503 Error when trying to access LRM after a Windows Credential Update
        • Troubleshooting Issues during Instrument Shutdown on the NovaSeq X Series
        • Troubleshooting Runs not Uploading to Cloud on the NovaSeq X and MiSeq i100 Series
        • Troubleshooting Windows OS Crashes or Blue Screen Errors on Illumina Instruments
        • Troubleshooting low disk space issues in the /var/log/ volume on NextSeq 1000/2000 and NovaSeq X/X Plus
        • Troubleshooting unable to login to Windows based sequencing system
    • iSeq 100
      • FAQ
        • Are custom primers loaded as a pool or individually on the iSeq 100?
        • Are custom primers recoverable after loading into the iSeq 100 reagent cartridge?
        • Are washes required on the iSeq 100?
        • Can Local Run Manager be used to plan iSeq 100 runs with custom sequencing primers?
        • Can PhiX be sequenced on the iSeq 100 when using custom primers?
        • Can custom primers be spiked into the Illumina primers within the iSeq 100 reagent cartridge?
        • Can custom sequencing primers be used on the iSeq 100?
        • Can iSeq 100 runs with custom primers be analyzed in Local Run Manager or BaseSpace Sequence Hub?
        • Does Illumina offer Preventative Maintenance (PM) for iSeq 100 system?
        • Does the iSeq 100 have any special moving considerations?
        • How many runs can be stored on the iSeq 100?
        • How much liquid waste is inside an iSeq 100 cartridge?
        • How to determine whether custom primers were selected on the iSeq 100 once the run is completed?
        • How to dilute custom primers for use on the iSeq 100?
        • How to dispose of iSeq 100 reagents?
        • How to minimize the iSeq 100 Control Software?
        • How to turn audio on or off on the iSeq 100?
        • Lifespan and maximum usage of the iSeq 100 System test kit
        • What are the available run setup modes for iSeq 100?
        • What does the iSeq 100 status bar color mean?
        • When do %>Q30 and %Pass Filter metrics become available for iSeq 100 runs?
      • Reference Material
        • Air Filter replacement on the iSeq 100
        • Chemistry and Imaging on iSeq 100
        • Consumable Catalog Numbers for the iSeq 100
        • Custom primer use workflow for iSeq 100 control software version 3.0
        • File Paths on the iSeq 100
        • How To Enable/Disable Illumina Proactive on iSeq 100
        • How to clear hard drive space on the iSeq 100
        • How to enable Wi Fi on the iSeq 100
        • Installing and using Local Run Manager Modules on the iSeq 100
        • Instructions for installing the iSeq Control Software
        • Library denaturation and compatibility for the iSeq 100 system
        • Library loading concentration considerations for the iSeq 100
        • Power cycling the iSeq 100
        • Reagent stability and thawing for the iSeq 100
        • Resources for iSeq 100 Control Software v3.0
        • Running a System Check on an iSeq 100
        • Software Restriction Policy (SRP) on the iSeq 100
        • Software update best practices on the iSeq 100
        • Specifications for the iSeq 100
        • Step by step instructions for sequencing library QC with the iSeq 100 System
        • Technical resources for the iSeq 100
        • Troubleshooting initialization failed because the API key is blank error the iSeq 100
        • Troubleshooting running low diversity samples with low PhiX spike in on the iSeq 100
        • User accounts for the iSeq 100
        • iSeq 100 Introduction Support Webinar Video
        • iSeq 100 Run Quality and Best Practices Support Webinar Video
        • iSeq 100 Sequencing System: Support Resources Video
        • iSeq 100 Sequencing System: Troubleshooting and Support Video
      • Troubleshooting
        • Blank BaseSpace login screen during run setup in control software on the iSeq 100
        • Clustering failures on the iSeq 100
        • Flow cell heater is out of specification error on an iSeq 100
        • How to identify when an air filter was changed on the iSeq 100.
        • Restore to Factory Settings Option on iSeq 100
        • System error detected please power cycle and perform system checks error on the iSeq 100
        • Troubleshooting "GenerateFASTQ 500 Internal Server Error" in Local Run Manager hosted on the iSeq 100
        • Troubleshooting "Initialization failed due to a software connectivity problem." on the iSeq 100
        • Troubleshooting Black Chromium Screen on the iSeq 100
        • Troubleshooting iSeq 100 pre run check “Insufficient disk space/Not enough space on D:\” error
        • Troubleshooting unable to locate D:\ drive or cartridge failed to unload error on iSeq 100
    • MiniSeq
      • FAQ
        • Can Flow Cell Registration be Disabled for Pre Run Checks on the MiniSeq?
        • Can Sequencing Analysis Viewer be used with the MiniSeq System to view sequencing metrics?
        • Can a previous MiniSeq run in Local Run Manager v1 be used to create a new run?
        • How long does a MiniSeq system check take to complete?
        • How many extra cycles are included in MiniSeq reagent cartridges?
        • Run setup modes for the MiniSeq
        • What does MiniSeq status bar color mean?
        • What is the maximum read length supported in one direction on a MiniSeq run?
        • Which controls should be used when sequencing low diversity libraries on a MiniSeq?
      • Reference Material
        • Consumable catalog numbers for the MiniSeq and total SBS cycles available
        • Custom primers on the MiniSeq
        • Enabling automatic reagent purge on the MiniSeq
        • Enabling saving thumbnail images on the MiniSeq
        • Estimated time for sequencing steps on the MiniSeq
        • File Paths for the MiniSeq Control Software v1.2
        • File Paths for the MiniSeq Control Software v2.0
        • Hard drives and computer of the MiniSeq
        • How to Perform a System Check on the MiniSeq
        • How to Power Cycle the MiniSeq
        • How to enable/disable Illumina Proactive on the MiniSeq
        • How to install custom recipes on MiniSeq Control Software v2.x
        • Information on Run Copy Service (RCS) on the MiniSeq
        • Introducing the MiniSeq Rapid Reagent Kit
        • Local Run Manager v1.3 for MiniSeq How to use a custom library prep kit
        • Low diversity sequencing on the MiniSeq
        • MiniSeq Control Software v2.0 “Invalid Role” error with Local Run Manager v2.4.1
        • MiniSeq Introduction Support Webinar Video
        • MiniSeq Reagent Kit Component Dimensions
        • MiniSeq system components overview
        • Pre run checks on the MiniSeq
        • Saved thumbnail options and how thumbnail images are named on MiniSeq
        • Specifications for the MiniSeq
        • Thawing and Stability Guidelines for MiniSeq Reagent Kits
        • Upgrading to MiniSeq Control Software v2
        • User supplied consumables for the MiniSeq
        • Washes on the MiniSeq
      • Troubleshooting
        • Blank BaseSpace login screen during run setup on MiniSeq Control Software v2
        • Chemistry and Imaging on MiniSeq
        • Import run option is not available following Local Run Manager Upgrade to 1.3.1 on MiniSeq
        • MiniSeq Control Software v2.0 not able to display BaseSpace page on the MiniSeq
        • MiniSeq run display anomaly in Sequencing Analysis Viewer with Mid Output Flow Cells
        • Operational Qualifications Results upload prompt at end of run on the MiniSeq
        • Pre Run Check Troubleshooting on the MiniSeq
        • Pre run check stalls on flow cell registration after installation of MiniSeq Control Software v2.0
        • Single Read option not available with Resequencing Analysis for the TruSeq HT kit on the MiniSeq
        • The optimal cluster density and PhiX loading concentration for MiniSeq runs
        • Troubleshooting "Ebox0 Fan is not operating as expected" warnings on the MiniSeq
        • Troubleshooting "Error in Fluidics, LanePump" error on the MiniSeq
        • Troubleshooting "RunCopyService executable does not exist" error in MiniSeq Control Software 1.3.1
        • Troubleshooting "Unable to create Output folder. MiniSeq does not have access to…" on MiniSeq
        • Troubleshooting "Y Stage Initialization Error Operation home failed..." errors on the MiniSeq
        • Troubleshooting Computer reboot hangs with Illumina logo splash screen on MiniSeq
        • Troubleshooting Duplicate analysis folders created for runs with successful LRM analyses on MiniSeq
        • Troubleshooting MiniSeq Z stages are not ready initialization error
        • Troubleshooting MiniSeq fails optical and stage tests "While measuring LED power"/"Failed XY Stage"
        • Troubleshooting RFID block can not be written (due to lock status) Error on the MiniSeq
        • Troubleshooting Timeout waiting 60000 ms within event EventToBlockingConverter error on the MiniSeq
        • Troubleshooting Windows 10 needs to be activated error on the MiniSeq.
        • Troubleshooting a "Syringe Overload" error on the MiniSeq
        • Troubleshooting camera, cluster, and focus errors at cycle 1 on the MiniSeq
        • Troubleshooting socket errors on the MiniSeq
        • Troubleshooting validation errors displaying when opening "module create run" page on the MiniSeq
        • Unable to pass pre run checks with Imaging Limits test on the MiniSeq
        • Wash Error "Binary Part number revision .. byte1 is invalid" on the MiniSeq
    • MiSeq
      • FAQ
        • Can MiSeq Reagents be stored at 80°C rather than 20°C?
        • Can Sequencing Analysis Viewer (SAV) be used with the MiSeq System to view primary analysis results?
        • Can a MiSeq post run wash be performed every week instead of entering standby mode?
        • Can a MiSeq v2 flow cell be used for sequencing with a MiSeq v3 reagent cartridge?
        • Can an entire index be N padded in Miseq Reporter?
        • Can an expired reagent cartridge be used for a MiSeq run?
        • Can secondary analysis run on MiSeq while a run is in progress?
        • Does the MiSeq verify the number of cycles in a planned run with the cycles in the reagent kit?
        • How Long Does the Flow Rate Check Take During the MiSeq Pre Run Checks?
        • How many cycles of sequencing can be performed with the MiSeq reagent kits?
        • How many index cycles can be sequenced on MiSeq?
        • How much template does the MiSeq System use?
        • How to access MiSeq Reporter
        • How to enable email notifications on the MiSeq
        • How to stop a MiSeq run
        • Is it possible to perform a primer rehybridization on a MiSeq?
        • MiSeq Flow cell compatibility for v2 and v3 reagent kits
        • Run setup modes for the MiSeq
        • What are the MiSeq dimensions and placement requirements?
        • What are the lab temperature requirements for the MiSeq?
        • What are the power specifications for the MiSeq?
        • What color of cap on the MiSeq flow cell container corresponds to which type of flow cell?
        • What does the MiSeq status bar color mean?
        • What if I did not name the sample sheet with the MiSeq reagent cartridge barcode number?
        • What is the maximum read lengths and total number of cycles for MiSeq kits?
        • What is the minimum PhiX amount that can be spiked into a run?
        • When do quality scores appear during a sequencing run on the MiSeq?
        • When is the demultiplexing summary generated for analyzed MiSeq runs?
        • Which Illumina library preparation kits are compatible with the MiSeq?
        • Which controls should be used when sequencing low diversity libraries on a MiSeq?
      • Reference Material
        • Best practices for maintaining the computer on a MiSeq
        • Chemistry and imaging on MiSeq
        • Configuring MiSeq Control Software v4 and MiSeq Reporter to write to Samba Shares on a Linux server
        • Consumable Part Numbers for the MiSeq and Total SBS cycles available
        • Custom sequencing primers on the MiSeq
        • Enabling run storage and analysis in BaseSpace for MiSeq runs
        • File paths for the MiSeq
        • Frequently asked questions about upgrading to MiSeq Control Software v4.0
        • How To Power Cycle the MiSeq Video
        • How to Create a Sample Sheet in Local Run Manager v2 and v3
        • How to Denature and Dilute Libraries and Spike in PhiX on the MiSeq Video
        • How to Enable/Disable Illumina Proactive on the MiSeq
        • How to Perform Washes on the MiSeq Video
        • How to Power Cycle the MiSeq
        • How to Prepare a MiSeq Sequencing Reagent Cartridge Video
        • How to Start a Run on the MiSeq Video
        • How to check network settings on the MiSeq
        • How to clean the MiSeq flow cell holder
        • How to configure MiSeq Reporter to use a network location as the default output folder
        • How to find sample sheet templates for MiSeq Control Software (MCS) v4.0 Local Run Manager
        • How to generate RFID bypass codes for the MiSeq
        • How to generate an RFID bypass code in MyIllumina Video
        • How to make sure FASTQ generation occurs in MiSeq Reporter when using BaseSpace for analysis
        • How to navigate the MiSeq Self Service Resources tool
        • How to perform a System Check on the MiSeq
        • How to prepare low yield (< 2 nM) libraries for sequencing on a MiSeq
        • How to properly format and use a custom reference genome in MiSeq Reporter
        • How to set up a PhiX validation run on MiSeq (using software v2.6 and earlier)
        • How to set up the sample sheet for a PhiX validation run on the MiSeq using IEM
        • How to stop and restart RTA on the MiSeq
        • MiSeq RFID Bypass Code生成方法
        • MiSeq Run Quality and Best Practices Support Webinar Video
        • MiSeq Sequencing Reagents Preparation: Flow cell Video
        • MiSeq flow cell tiles by flow cell type
        • MiSeq output and analysis folder quick reference guide
        • MiSeq上开始一个测序反应的时候,遇到Flow Rate检测失败,该如何处理?
        • MiSeq上机测序时如何准备<2nM 的文库
        • Reagent Stability and Thawing Guidelines for MiSeq Sequencing Kits
        • Recommendations for optimal cluster density and PhiX loading concentrations on the MiSeq System
        • Reference images for the MiSeq
        • Run folder sizes and Disk Space on the MiSeq
        • Sample sheet creation for MiSeq Control Software v2.6 and Earlier
        • Specifications for the MiSeq
        • Technical resources for the MiSeq
        • Thumbnail Image naming conventions for the MiSeq
        • Upgrading to MiSeq Control Software v4.0
        • User supplied consumables for sequencing on the MiSeq
        • Wash Notifications on the MiSeq
        • Wash best practices for the MiSeq
        • 如何排查Miseq平台上的第一个循环报错的原因?
      • Troubleshooting
        • Best practices to avoid low cluster density on the MiSeq
        • How to Check if a MiSeq Cartridge was pierced during a run.
        • How to access Windows on the MiSeq if there is black screen at boot up
        • How to recover Local Run Manager v3 Account when locked out
        • How to troubleshoot MiSeq runs taking longer than usual or expected
        • How to troubleshoot The process cannot access the file error on MiSeq
        • Troubleshooting "@@@ Failed to get temperature" error on the MiSeq
        • Troubleshooting "Compensator Move and/or Sensor Failed" errors on the MiSeq
        • Troubleshooting "Conflict" errors at end of MiSeq runs
        • Troubleshooting "Initialize Cameras before capturing images" error on the MiSeq
        • Troubleshooting "Primary Analysis Not Ready" errors during Pre run Checks on MiSeq
        • Troubleshooting "TEC2SERVO unrecognize char" error during MiSeq Control Software initialization
        • Troubleshooting "Unable to communicate with BaseSpace" error when setting up MiSeq run on Windows 10
        • Troubleshooting "Unsuccessfully attempted to launch module type" error with LRMv3 on MiSeq
        • Troubleshooting "Y home sensor never tripped" error on MiSeq
        • Troubleshooting 'Index outside the bounds of the array' error on the MiSeq
        • Troubleshooting Camera exception, error= 360: Failed to perform sBCa on the MiSeq
        • Troubleshooting Cannot get Value value (type Boolean) errors on the MiSeq
        • Troubleshooting Cavro Pump Error on MiSeq
        • Troubleshooting FASTQ Generation failing to start automatically in MiSeq using MiSeq Reporter
        • Troubleshooting FASTQ generation not occurring automatically after a MiSeq run has completed successfully and successfully uploaded to BaseSpace
        • Troubleshooting FPGA RFID ERROR STATUS 2 errors on the MiSeq
        • Troubleshooting FPGA Timeout Errors on the MiSeq
        • Troubleshooting Focus Mirror Error on the MiSeq
        • Troubleshooting Free Disk Space errors during Pre run Checks on MiSeq
        • Troubleshooting Green LED Failed polling LED status error on MiSeq
        • Troubleshooting Invalid Role Errors after Post Run Washes on the MiSeq
        • Troubleshooting LRM error "Valid index kit must be provided for the selected library prep kit"
        • Troubleshooting Lane Pump Errors on the MiSeq
        • Troubleshooting MiSeq "Z Motor The Z stage amp Op amp might not be wired correctly" Error
        • Troubleshooting MiSeq "a valid index kit must be provided for the selected library prep kit" error
        • Troubleshooting MiSeq Control Software (MCS) v4 stalling during initialization
        • Troubleshooting MiSeq Read 2 low intensity and quality scores
        • Troubleshooting MiSeq washes taking extended time to complete
        • Troubleshooting MiSeqOverride.cfg Errors on the MiSeq
        • Troubleshooting Network Connection Active errors during Pre run Checks on MiSeq
        • Troubleshooting PR2 Bottle Not Detected Error on the MiSeq
        • Troubleshooting RFID Not Recognized Error on the MiSeq
        • Troubleshooting RFID cannot be written error on the MiSeq
        • Troubleshooting Reagent Valve errors on the MiSeq
        • Troubleshooting SIPDOWN Errors on the MiSeq
        • Troubleshooting Sample Sheet will not Load into MiSeq Control Software
        • Troubleshooting Sipdown Errors on the MiSeq video
        • Troubleshooting Stalled Flow Rate Check on the MiSeq
        • Troubleshooting Waste Bottle is Full notification on the MiSeq
        • Troubleshooting Y Motor Errors on the MiSeq
        • Troubleshooting Z Motor Positive soft limit too nonlinear at innermost test point on the MiSeq
        • Troubleshooting Z motor errors occurring mid run on the MiSeq
        • Troubleshooting a MiSeq "Consecutive Camera Failure Limit has been Exceeded for this Run" error
        • Troubleshooting a bubble in MiSeq flow cell
        • Troubleshooting access to the path Global\Local Run Manager is denied on MiSeq
        • Troubleshooting an Object Reference Error on MiSeq
        • Troubleshooting best focus errors occurring mid run on the MiSeq
        • Troubleshooting cycle 1 errors on the MiSeq
        • Troubleshooting failed MiSeq system checks
        • Troubleshooting file is not properly formatted warning on the MiSeq
        • Troubleshooting frozen MiSeq Control Software
        • Troubleshooting high cluster density on MiSeq
        • Troubleshooting low cluster density on the MiSeq
        • Troubleshooting mid run shutdowns or reboots on the MiSeq
        • Troubleshooting no intensity for index read on MiSeq
        • Troubleshooting scratched or damaged flow cells on MiSeq
        • Troubleshooting unable to measure flow rate errors on the MiSeq
    • MiSeq i100 Series
      • FAQ
        • When will Live %Demux information be available for a MiSeq i100 Series run?
        • Where to find the MAC Address for the MiSeq i100 Series
      • Reference Material
        • Activating TeamViewer on the MiSeq i100 Series Instruments
        • Considerations for Index color balancing on the MiSeq i100 Series
        • Consumable catalog numbers for the MiSeq i100 Series
        • Estimating Disk Space Utilization on the MiSeq i100 Series
        • File paths on the MiSeq i100 Series
        • Handling and disposal information for used reagents on the MiSeq i100 Series
        • How to Access the Linux Terminal on the MiSeq i100 Series Instruments
        • How to Configure Network Settings for the MiSeq i100 after First Time Setup
        • How to Export Logs on the MiSeq i100 Series
        • How to Power Cycle the MiSeq i100 Series
        • How to Restart File Transfer on the MiSeq i100 Series
        • How to Setup a Remote Connection to Illumina Run Manager on the MiSeq i100 Series Instruments
        • How to Setup the System Health Checks on the MiSeq i100 Series Instruments
        • How to Spike in PhiX for the MiSeq i100 Series
        • How to change passwords for the Control Software accounts on the MiSeq i100 Series Instrument
        • How to retrieve the DRAGEN (FPGA) Serial Number for MiSeq i100 Series Systems
        • How to set up a PhiX validation run on MiSeq i100 Series
        • Instrument reference images for the MiSeq i100 Series
        • Loading Concentration Optimization Recommendations for the MiSeq i100 Series
        • Offline DRAGEN License Installation on the MiSeq i100 Series
        • Planning a Manual Mode Run on MiSeq i100 Series
        • RTA4 Q Score Bin Ranges on the MiSeq i100 Series
        • Reagent Stability Guidelines for the MiSeq i100 Series Consumables
        • Recommended Network Security Allow List for the MiSeq i100 Series
        • Run Mode options for the MiSeq i100 Series
        • Sequencing Illumina Stranded Total RNA and mRNA Libraries on the MiSeq i100 Series
        • Specifications for the MiSeq i100 Series Instruments
        • Spiking custom primers into the Illumina sequencing primers for MiSeq i100 Series
        • Tested Product Guidance for USB External Storage Devices on the MiSeq i100 Series
        • Two Channel Chemistry and Imaging on the MiSeq i100 Series
        • Waste Volumes for MiSeq i100 Series Reagents
      • Troubleshooting
        • Cloud Analysis Errors using Sample Sheet Workflow on the MiSeq i100 Series
        • How to Troubleshoot Clustering Failures on the MiSeq i100 Series
        • Mitigating Instrument Platform Services Errors on the MiSeq i100 Series
        • Troubleshooting "Additional instrument configuration is required" Issues on the MiSeq i100 Series
        • Troubleshooting 'An unexpected error occurred during sequencing' Errors on the MiSeq i100 Series
        • Troubleshooting 'EdgeOS You are offline' errors on the MiSeq i100 Series
        • Troubleshooting 'Failed to start First Time Setup' Errors on the MiSeq i100 Series Instruments
        • Troubleshooting 'Status code 523' Errors in Cloud Settings on the MiSeq i100 Series
        • Troubleshooting APIException: Bad Request Errors when setting Default Output Folder on the MiSeq i100 Series
        • Troubleshooting CIM Homing Errors during Initialization on the MiSeq i100 Series
        • Troubleshooting Cloud Connectivity Pre Run Check Errors on the MiSeq i100 Series
        • Troubleshooting Flow Cell Thermal Errors during Pre Run Checks on the MiSeq i100 Series
        • Troubleshooting HttpClient.Timeout Errors during Pre Run Checks on the MiSeq i100 Series
        • Troubleshooting Inaccurate Estimated Completion Time on the MiSeq i100 Series
        • Troubleshooting Index Dropouts or No Reads Identified for Single Sample on the MiSeq i100 Series
        • Troubleshooting Insufficient Space on External Storage on the MiSeq i100 Series Instruments.
        • Troubleshooting Internal Server Error in Cloud Settings on the MiSeq i100 Series
        • Troubleshooting Issues with Waste Level Sensor System Check on the MiSeq i100 Series
        • Troubleshooting Leak Detection Errors on the MiSeq i100 Series
        • Troubleshooting Memory Metal Alloy (MMA) Motion Stalls on the MiSeq i100 Series
        • Troubleshooting Pressure Charging Failures on the MiSeq i100 Series
        • Troubleshooting Stalled Cloud Login Screen on the MiSeq i100 Series
        • Troubleshooting Stalled Secondary Analyses Onboard the MiSeq i100 Series.
        • Troubleshooting System Configuration errors during Pre Run Checks on the MiSeq i100 Series
        • Troubleshooting Touch Screen Not Responding on the MiSeq i100 Series
        • Troubleshooting Unable to connect to external storage Errors on the MiSeq i100 Series
    • NextSeq 500/550
      • FAQ
        • At which cycle of NextSeq 500/550 are run metrics calculated?
        • Can the NextSeq 500/550 v2.5 flow cell be used with the v2 Reagent cartridge and buffer cartridge?
        • Can the output folder for a NextSeq 500/550 run be saved to the local computer?
        • Common Questions Related to NextSeq 500/550 v2.5 Kit
        • Common questions regarding custom recipes for the NextSeq 500/550
        • Do NextSeq 500/550 v2.5 runs have different specifications than v2.0 reagent runs?
        • How long does a NextSeq 500/550 system check take to complete?
        • How long does it take to purge all reagents in a NextSeq 500/550 run?
        • How many extra cycles are included in NextSeq 500/550 reagent cartridges?
        • How to set up a NextSeq 500/550 to upload to a BaseSpace Enterprise account using NCS v.4.0.1
        • Run setup modes for the NextSeq 500/550
        • What do the NextSeq 500/550 status bar colors mean?
        • What is the difference between NextSeq PhiX Control Kit and PhiX Control v3?
        • What is the maximum read length supported in one direction on a NextSeq 500/550 run?
        • Will the NextSeq 500/550 Control Software prevent run setup with read lengths fewer than 25 cycles?
      • Reference Material
        • Best Practices for maintaining the computer on a NextSeq 500/550
        • Chemistry and imaging on NextSeq 500/550
        • Consumable part numbers for the NextSeq 500/550
        • File paths for the NextSeq 500/550
        • Frequently asked questions about upgrading to NextSeq 500/550 Control Software version 4.0
        • Hardware overview for the NextSeq 500/550
        • How to Denature and Dilute Libraries on the NextSeq 500/550 Video
        • How to Find the Control Software Version on the NextSeq 500/550
        • How to Perform a NextSeq 500/550 Power Cycle
        • How to Prepare Reagents Pre Run on the NextSeq 500/550 Video
        • How to Replace a NextSeq 500/550 Air Filter
        • How to change a run folder name on the NextSeq 500/550
        • How to create Local Run Manager credentials to perform a NextSeq 500/550 system check in NCS 4.0.X
        • How to denature and dilute libraries on the NextSeq 500/550
        • How to enable/disable Illumina Proactive on NextSeq 500/550
        • How to perform washes on the NextSeq 500/550
        • How to select custom recipes on the NextSeq 500/550 in NextSeq Control Software (NCS) 4.0.X
        • How to set up a PhiX validation run on the NextSeq 500/550 in manual mode
        • How to set up a Wash on the NextSeq 500/550 Video
        • How to set up a run on the NextSeq 500/550 Video
        • How to skip the pre run check confirmation on the NextSeq 500/550
        • How to turn on thumbnails for troubleshooting on the NextSeq 500/550
        • How to use a 10X Multiome ATAC Library custom recipe for NextSeq 500/550
        • Indexing considerations for NextSeq 500/550 sample sheets
        • Instructions for thawing and storing NextSeq 500/550 reagents
        • Layout for NextSeq 500/550 flow cells
        • Maximum read lengths and number of cycles for different NextSeq 500/550 kits
        • NextSeq 500/550 Control Software v4.0.1 "Invalid Role" error with Local Run Manager v2.4.0
        • NextSeq 500/550 Run Quality and Best Practices Support Webinar Video
        • Optical System on NextSeq 500/550
        • Post Run Automatic Purge for NextSeq 500/550
        • Reagent cartridge and buffer layout for NextSeq 500/550
        • Recommendations for using custom primers on the NextSeq 500/550
        • Run folder sizes and disk space on the NextSeq 500/550
        • Software information regarding the NCS 4.0.X upgrade for NextSeq 500/550
        • Specifications for the NextSeq 500/550
        • Temperature control on NextSeq 500/550
        • Thumbnail image information on the NextSeq 500/550
        • Troubleshooting "Would you like to include the first time setup results…?" on NextSeq 500/550
        • Upgrading to NextSeq Control Software v4
      • Troubleshooting
        • Best practices for NextSeq 500/550 pre run check failures requiring a power cycle
        • How to change a NextSeq 500/550 nickname
        • How to fix inaccurate or inverted touch screen on the NextSeq 500/550
        • How to perform a NextSeq 500/550 system check
        • Optimal cluster density guidelines for the NextSeq 500/550
        • Troubleshooting "Local Run Manager Error Row was updated or deleted" error on the NextSeq 500/550
        • Troubleshooting 'Lane Pump not initialized' fluidics related error on the NextSeq 500/550
        • Troubleshooting 'Not Found' error message on NextSeq 500/550
        • Troubleshooting Access to the path 'C:\NextSeqCalibration.cfg' is denied error on NextSeq 500/550
        • Troubleshooting Cannot Update Metrics errors on the NextSeq 500/550
        • Troubleshooting Custom Sequencing Primers selected by mistake in manual mode on the NextSeq 500/550
        • Troubleshooting Cycle 1 Error, Camera Disabled, Failed to Detect Clusters on the NextSeq 500/550
        • Troubleshooting Local Run Manager originally caused by an internal server error on NextSeq 500/550
        • Troubleshooting NVRAM or Socket Errors on NextSeq 500/550
        • Troubleshooting NextSeq 500/550 (NCS 2.2 or earlier) not showing Planned Run from BaseSpace PrepTab
        • Troubleshooting NextSeq 500/550 run stopping with "Local Run Manager Error: Bad Request" error
        • Troubleshooting Object Reference error on NextSeq 500/550
        • Troubleshooting Possible Stale Image Data Detected on the NextSeq 500/550
        • Troubleshooting RFID errors on NextSeq 500/550
        • Troubleshooting RheodyneValve error on NextSeq 500/550
        • Troubleshooting ThermoCouple_Side TemperatureProbe not operating as expected on the NextSeq 500/550
        • Troubleshooting Unable to Unload Reagents on the NextSeq 500/550
        • Troubleshooting Universal Copy Server error on the NextSeq 500/550 (NCS 4.0+)
        • Troubleshooting Wash State Unknown in NextSeq 500/550 Control Software (NCS) v4.0.0
        • Troubleshooting a CavroSyringePump Error on the NextSeq 500/550
        • Troubleshooting a Failed Camera Board on the NextSeq 500/550
        • Troubleshooting a Failed to Get Temperature error on the NextSeq 500/550
        • Troubleshooting a Flow Cell Door error on the NextSeq 500/550
        • Troubleshooting a Flow Cell Registration Failed (Skew) warning on the NextSeq 500/550
        • Troubleshooting a NextSeq 500/550 An existing connection was forcibly closed by a remote host error
        • Troubleshooting a NextSeq 500/550 Cavro Syringe Pump error
        • Troubleshooting a RAID error on the NextSeq 500/550
        • Troubleshooting a Remote Server Returned An Error on NextSeq 500/550
        • Troubleshooting a Software Shutdown Issue Warning on the NextSeq 500/550 with NCS 4.0.X
        • Troubleshooting a Specific Camera Disabled Failed to Detect Clusters error on the NextSeq 500/550
        • Troubleshooting a buffer cartridge/tray stuck in the NextSeq 500/550
        • Troubleshooting a flow cell registration stall during pre check on first run on NextSeq 500/550
        • Troubleshooting an Async Firmware Operation Error on the NextSeq 500/550
        • Troubleshooting an Internal Temperature was Out of Range error on the NextSeq 500/550
        • Troubleshooting an empty output folder on the NextSeq 500/550 NCS 4.0
        • Troubleshooting an error related to InstrumentMaintenanceState.xml on the NextSeq 500/550
        • Troubleshooting an imaging system failed pre run check error on the NextSeq 500/550
        • Troubleshooting an initialization failure due to Proxy warning on the NextSeq 500/550
        • Troubleshooting blank BaseSpace login screen during run setup for NextSeq 500/550
        • Troubleshooting flow cell registration failed to find fiducial on the NextSeq 500/550
        • Troubleshooting fluidics automation error on the NextSeq 500/550
        • Troubleshooting issues unloading reagents on a NextSeq 500/550
        • Troubleshooting mid run Camera Disabled error on the NextSeq 500/550
        • Troubleshooting no output folder created when set in the Local drive on NextSeq 500/550 (NCS 4.0)
        • Troubleshooting pre run checks with Temperature sensor check failed: Board 0/1 on NextSeq 500/550
        • Troubleshooting presence of snr.csv Files in Temp folder on NextSeq 500/550 (NCS 4.0.2)
        • Troubleshooting spent reagent cartridge is full on the NextSeq 500/550
        • Troubleshooting spent reagent cartridge not detected on NextSeq 500/550
    • NextSeq 1000/2000
      • FAQ
        • Can NextSeq 1000/2000 custom primers be diluted in in RSB with Tween instead of HT1?
        • Can NextSeq 1000/2000 run folders be set up to be deleted automatically?
        • Can a NextSeq 1000/2000 reagent cartridge be used if the foil packaging has been pierced?
        • Can a NextSeq 1000/2000 sequencing run be set up with fewer than 26 cycles in read 1?
        • Can a run be started on the NextSeq 1000/2000 without an active DRAGEN license?
        • Can a run on the NextSeq 1000/2000 use expired reagents?
        • Can additional users be added to the Linux interface on the NextSeq 1000/2000?
        • Can the NextSeq 1000/2000 run on 120V or 240V power?
        • Common Questions Related to Sequencing Analysis Viewer (SAV) software and the NextSeq 1000/2000
        • Custom recipes for Illumina Stranded libraries on NextSeq 1000/2000
        • Does the NextSeq 1000/2000 have thumbnail images available for troubleshooting?
        • Does the NextSeq 1000/2000 require a wash after run completes?
        • How to create new user accounts on the NextSeq 1000/2000
        • How to dispose of a NextSeq 1000/2000 flow cell?
        • How to obtain a NextSeq 1000/2000 v2 sample sheet?
        • How to switch user accounts on NextSeq 1000/2000
        • Is there a maximum number of cycles for index reads on the NextSeq 1000/2000?
        • What is the difference between RSB with Tween 20, part number 20047304 and 20050639?
        • Which NextSeq 1000/2000 run modes require a v2 sample sheet?
      • Reference Material
        • Air filter replacement on the NextSeq 1000/2000
        • Autocenter process and images on the NextSeq 1000/2000
        • Best practices for custom sequencing primer use on the NextSeq 1000/2000
        • Chemistry and imaging on the NextSeq 1000/2000
        • Cleaning NextSeq 1000/2000 cartridge tray in case of reagent leak inside the instrument
        • Consumable part numbers for the NextSeq 1000/2000
        • Custom recipes on the NextSeq 1000/2000
        • Demultiplex information from DRAGEN on the NextSeq 1000/2000
        • Disk Management on the NextSeq 1000/2000
        • Editing runs from Run Planning after selection in the NextSeq 1000/2000 control software
        • End of Life Schedule for NextSeq 1000 / 2000 SBS Standard Consumables
        • File paths on the NextSeq 1000/2000
        • Flow cell overview for the NextSeq 1000/2000
        • How To Perform a System Check on the NextSeq 1000/2000 Video
        • How To Replace the NextSeq 1000/2000 Air Filter Video
        • How To Update The Software On A NextSeq 1000/2000 Video
        • How to Manually Start and Stop Universal Copy Service (UCS) on the NextSeq 1000/2000 Video
        • How to Mount a Network Drive via Network File System (NFS) on NextSeq 1000/2000 Video
        • How to Mount a Network Drive via SMB/CIFS on NextSeq 1000/2000 Video
        • How to Use the Cartridge Recycling Tool for NextSeq 1000/2000 Video
        • How to check free disk space via terminal on the NextSeq 1000/2000
        • How to install TeamViewer QuickSupport on NextSeq 1000/2000
        • How to navigate to TeamViewer on the NextSeq 1000/2000
        • How to perform Linux OS updates on the NextSeq 1000/2000
        • How to power cycle the NextSeq 1000/2000
        • How to properly delete runs on the NextSeq 1000/2000 Video
        • How to requeue a NextSeq 1000/2000 run locally (on the instrument)
        • How to setup a sequencing run for the NextSeq 1000/2000
        • Index color balancing for the NextSeq 1000/2000 system using standard SBS reagents
        • Index orientation in v2 sample sheets for the NextSeq 1000/2000
        • Index read strategy for the NextSeq 1000/2000
        • Introducing the NextSeq 1000/2000 P1 100 cycle, P1 600 cycle and P2 600 cycle reagent kits
        • Introducing the NextSeq 1000/2000 P1 Reagent kit
        • Introduction to the NextSeq 1000/2000 System Support Webinar Video
        • Library denaturation for the NextSeq 1000/2000
        • Links to resources and helpful notes for the NextSeq 1000/2000
        • Lost connection with server error on the NextSeq 1000/2000
        • Manual denaturation of libraries on the NextSeq 1000/2000
        • Moving custom recipes using the Linux terminal on the NextSeq 1000/2000
        • Networking and output locations on the NextSeq 1000/2000
        • NextSeq 1000/2000 Control Software v1.5.0 installation instructions
        • NextSeq 1000/2000 Loading Optimization for XLEAP SBS kits
        • NextSeq 1000/2000 XLEAP SBS Cartridge Preparation Video
        • NextSeq 1000/2000 loading optimization for Standard SBS kits
        • NextSeq 1000/2000 reagents disposal and cartridge recycling tool
        • Purge settings on the NextSeq 1000/2000
        • Real Time Analysis (RTA) on NextSeq 1000/2000 Overview
        • Reference images for NextSeq 1000/2000
        • Returning NextSeq 1000/2000 reagents to storage
        • Run mode options for the NextSeq 1000/2000
        • Sample sheets for the NextSeq 1000/2000
        • Setting external hard drives as the default output folder on NextSeq 1000/2000
        • Shelf life of NextSeq 1000/2000 reagents
        • Specifications for the NextSeq 1000/2000
        • Storage temperature, shipping conditions and dimensions of NextSeq 1000/2000 reagents
        • System Checks for the NextSeq 1000/2000
        • Thawing and reagent preparation guidelines for the NextSeq 1000/2000 reagents
        • Tips and tricks for navigating the Linux Environment on the NextSeq 1000/2000
        • User accounts and password management on the NextSeq 1000/2000
        • Viewing NextSeq 1000/2000 runs in Sequencing Analysis Viewer
        • What does NextSeq 1000/2000 status bar color mean?
      • Troubleshooting
        • Failure to find fiducial errors on the NextSeq 1000/2000
        • Flow cell is not detected error on the NextSeq 1000/2000
        • How To Power Cycle NextSeq 1000/2000 Video
        • How to change passwords and unlock accounts on the NextSeq 1000/2000
        • How to resolve an error occurred while populating NextSeq 1000/2000 data in SAV
        • Humidity warning during pre run check on the NextSeq 1000/2000
        • Internal network issues on the NextSeq 1000/2000
        • Manually stopping and restarting Universal Copy Service (UCS) on the NextSeq 1000/2000
        • NextSeq 1000 and 2000 Run Quality and Best Practices Support Webinar Video
        • NextSeq 1000/2000 Control Software upgrade from 1.7.0 to 1.7.1 system integration error
        • Pre Run check failed with an alignment check failure on the NextSeq 1000/2000
        • Pre run check failed at Fluidics stage on the NextSeq 1000/2000
        • Recommendations for using external hard drives on the NextSeq 1000/2000 platforms
        • Resolving issues with Process Management on NextSeq 1000/2000
        • Sample Sheet Import Errors on the NextSeq 1000/2000
        • Single tile drop outs affecting metrics on the NextSeq 1000/2000
        • Troubleshooting "An error occurred while checking requeue availability" on the NextSeq 1000/2000
        • Troubleshooting "Error performing Sequencing_ProtocolName_Safestate" error on the NextSeq 1000/2000
        • Troubleshooting "Failed to send WATCHDOG=1 notification message:" on the NextSeq 1000/2000
        • Troubleshooting 'mount' Errors when Networking NextSeq 1000/2000 Instruments
        • Troubleshooting DRAGEN version warnings and errors after the NextSeq 1000/2000 Control Software upgrade to version 1.7
        • Troubleshooting Failed to execute connectivity check input parameters on the NextSeq 1000/2000
        • Troubleshooting Filesystem type exFAT not configured in kernel message on the NextSeq 1000/2000
        • Troubleshooting NextSeq 1000/2000 Control Software failure to initialize with cartridge error
        • Troubleshooting NextSeq 1000/2000 eject cartridge prompt remains after ejecting the cartridge
        • Troubleshooting NextSeq 1000/2000 low read 1 intensity
        • Troubleshooting System File errors during pre run checks on the NextSeq 1000/2000
        • Troubleshooting a black screen after a power cycle on the NextSeq 1000/2000
        • Troubleshooting install package integrity check failed during NextSeq 1000/2000 upgrade to v1.7
        • Troubleshooting keyring prompts on the NextSeq 1000/2000
        • Troubleshooting network output directory issues after updating to NextSeq 1000/2000 CS v1.5
        • Troubleshooting no DRAGEN License after installing DRAGEN BCL Convert 4.2
        • Understanding loading and percent loading concentration on the NextSeq 1000/2000
        • Universal Copy Service failed to validate the Output Folder error on the NextSeq 1000/2000
        • Updating the system time on the NextSeq 1000/2000
        • Why is NextSeq 1000/2000 control software update not available from the Software Update menu?
    • cBot
      • Reference Material
        • How to perform a Read 1 rehybridization of a HiSeq v4 high output flow cell on the cBot
    • HiSeq 1000/2500
      • Reference Material
        • HiSeq 1000/1500/2000/2500 rehybridization quick reference chart
        • How to quick format data drives on HiSeq 1000/1500/2000/2500
    • HiSeq X
      • Reference Material
        • Technical resources for the HiSeq X system
    • NovaSeq X/X Plus
      • FAQ
        • Custom recipes for Illumina Stranded libraries on NovaSeq X Series
        • Does the NovaSeq X/X Plus use Single or Multi Node Connection Terminations?
        • Effects of library quality and indexes on demultiplexing NovaSeq X Series data
        • Handling and Disposal Recommendations for Used Reagents on the NovaSeq X Series
        • When are the run folders created after initiating a sequencing run on the NovaSeq X/X Plus?
        • Which lanes should be selected during sample sheet creation for a 1.5B run on the NovaSeq X/X Plus
      • Reference Material
        • Air filter replacement on the NovaSeq X Series
        • Chemistry and Imaging on the NovaSeq X Series Instruments
        • Consumable catalog numbers for the NovaSeq X Series kits
        • File paths on the NovaSeq X Series
        • How to Power Cycle the NovaSeq X Series Instruments
        • How to Restart File Transfer on the NovaSeq X Series
        • How to access network storage locations in Linux on the NovaSeq X Series
        • How to add custom index adapter and library prep kits to the NovaSeq X Series Instruments
        • How to add new NovaSeq X Series Control Software users on the NovaSeq X/X Plus
        • How to change passwords for the Control Software accounts on the NovaSeq X Series Instruments
        • How to change the Linux OS passwords on the NovaSeq X Series Instruments
        • How to configure External Storage locations on the NovaSeq X Series
        • How to install TeamViewer QuickSupport on the NovaSeq X Series Instruments
        • How to perform a Maintenance Wash on the NovaSeq X Series Instruments
        • How to plan a Local sequencing run on the NovaSeq X Series
        • How to use custom primers on the NovaSeq X Series
        • How to use the Log Bundler v1.3 Application on NovaSeq X Series
        • Illumina specifications for the NovaSeq X Series
        • Index color balancing for XLEAP SBS reagents on the NextSeq 1000/2000 and NovaSeq X/X Plus
        • Introducing the Illumina NovaSeq X System
        • Library Loading Concentration and Optimization Guide for NovaSeq X/X Plus Instruments
        • Library loading concentrations and considerations for the NovaSeq X/X Plus instruments
        • Optimizing Library Insert Size Representation on NovaSeq X Series Instruments
        • PhiX Spike In Requirements for Low Diversity Libraries on NovaSeq X Series Instruments
        • Planning a Manual Mode Run on NovaSeq X/X Plus
        • RTA4 Q Score Bin Ranges on the NovaSeq X/X Plus
        • Reagent stability and thawing guidelines for the NovaSeq X Series
        • Run Mode options for the NovaSeq X Series
        • Troubleshooting Insufficient Storage Space Errors during Pre Run Checks on the NovaSeq X Series
        • User Accounts and Password Management on the NovaSeq X/X Plus Instrument
        • Using expired reagents on the NovaSeq X Series
        • Using the BaseSpace Command Line Interface (CLI) Tool on the NovaSeq X Series
        • Validated USB Storage Devices for NovaSeq X Series Control Software v1.3.1
        • Wash Flow Cell Use Counter on NovaSeq X Series
      • Troubleshooting
        • How to Resolve "sma_air_a/b was not present in dictionary" Errors During Pre Run Checks on the NovaSeq X Plus
        • How to Troubleshoot No Intensity or 0% Passing Filter at Inlet and Outlet Tiles on NovaSeq X Series
        • How to requeue or perform a new analysis of existing data on the NovaSeq X Series
        • How to resolve 'An unknown error has occurred' critical system errors on the NovaSeq X Series Instruments
        • How to resolve 'Critical System Error: An unexpected error has occurred with system integration' during initialization on the NovaSeq X/X Plus
        • How to resolve Network Connection warnings during Pre Run Checks on the NovaSeq X Series
        • How to resolve issues with keyboard tray ejecting on the NovaSeq X/X Plus
        • How to troubleshoot "The instrument encountered a thermal coolant error" on the NovaSeq X Series
        • How to troubleshoot CIB Fault Initialization errors on the NovaSeq X/X Plus
        • How to troubleshoot Insufficient Memory errors during Pre Run Checks on the NovaSeq X Series Instruments
        • How to troubleshoot MaxWetS2SpotIntensity Errors during Wet Pre Run Checks on the NovaSeq X Series
        • How to troubleshoot clustering failures on the NovaSeq X Series
        • How to troubleshoot errors during the pre run Wet Checks on the NovaSeq X/X Plus
        • How to troubleshoot low percent clusters passing filter (%PF) on the NovaSeq X/X Plus
        • Troubleshooting "Unable to update index information of the Library" on the NovaSeq X/X Plus
        • Troubleshooting 'A configuration file cannot be assessed' Warnings during Pre Run Checks on the NovaSeq X Series
        • Troubleshooting 'Insufficient memory to continue the execution of the program' errors on the NovaSeq X Plus
        • Troubleshooting 'One or more unknown settings found' Errors during Run Planning on the NovaSeq X Series
        • Troubleshooting Flow Cell Vacuum Failed to Engage on the NovaSeq X/X Plus
        • Troubleshooting Issues with Allocating Disk Space during Pre Run Checks on the NovaSeq X Series
        • Troubleshooting Reagent Compartment Doors Failing to Unlock on the NovaSeq X Series
        • Troubleshooting Regions of Reduced %Passing Filter on NovaSeq X Series
        • Troubleshooting multiple entries with identical indices error during run setup on NovaSeq X Series
    • NovaSeq 6000
      • FAQ
        • Can a NovaSeq 6000 4 lane Xp kit be used for 2 lane NovaSeq 6000 flow cells?
        • Can a different tube type be used in place of the library tubes for NovaSeq 6000 runs?
        • Can a lab network be upgraded to support faster file transfer on the NovaSeq 6000?
        • Can custom primers be used on the NovaSeq 6000 System?
        • Can different libraries pools be loaded in each lane when using NovaSeq 6000 Xp workflow?
        • Can expired consumables be used for a NovaSeq 6000 run?
        • How does the NovaSeq 6000 Xp workflow differ from NovaSeq 6000 standard workflow?
        • How long does it take for Universal Copy Service copying to complete on NovaSeq 6000?
        • How long will the NovaSeq 6000 UPS support the instrument should backup power not engage?
        • How often does the NovaSeq 6000 wash flow cell need to be replaced?
        • Is a local copy of each run saved on the NovaSeq 6000?
        • What do NovaSeq 6000 status bar colors mean?
        • What effect does prolonged flow cell staging time have on clustering for the NovaSeq 6000?
        • What is the library loading concentration for NovaSeq 6000 Xp workflow?
        • What volume of ExAmp reagent is added by the NovaSeq 6000 during a standard run?
        • When can runs be staggered on NovaSeq 6000?
        • Where to find the Safety Data Sheet (SDS) for NovaSeq6000 coolants?
        • Which types of sample sheet can be used when analyzing NovaSeq 6000 run data?
      • Reference Material
        • Best practices when updating to NovaSeq 6000 Control Software v1.8
        • Computer Hardware Specifications for NovaSeq 6000
        • Consumable catalog numbers for the NovaSeq 6000 v1.5
        • How To Power Cycle NovaSeq 6000 Video
        • How to Enable/Disable Illumina Proactive on the NovaSeq 6000
        • How to Perform a System Health Check on the NovaSeq 6000 Video
        • How to Power Cycle the NovaSeq 6000 System
        • How to configure a NovaSeq 6000, with Control Software 1.8.x or greater, to work with a Proxy Server
        • How to perform system checks on the NovaSeq 6000
        • How to set the output location in the NovaSeq 6000 Control Software
        • How to set up a PhiX validation run on the NovaSeq 6000 sequencing platform
        • How to start a maintenance wash without used buffer cartridges on the NovaSeq 6000
        • How to stop and restart Universal Copy Service manually on the NovaSeq 6000
        • Index color balancing for the NovaSeq 6000 system
        • Introducing NovaSeq Control Software version 1.8
        • Introducing the NovaSeq 6000 v1.5 reagents
        • Minimum storage requirements to start a NovaSeq 6000 run
        • NovaSeq 6000 File paths
        • NovaSeq 6000 Introduction Support Webinar Video
        • NovaSeq 6000 flow cell types and their compatibility with NovaSeq Control Software versions
        • NovaSeq 6000 storage management and best practices
        • Reagent Cartridge Layout for NovaSeq 6000
        • Real Time Analysis (RTA3) on NovaSeq 6000 Overview
        • Reference images for NovaSeq 6000
        • Software Restriction Policy (SRP) on the NovaSeq 6000
        • Specifications for the NovaSeq 6000
        • Thawing, stability, and storage of NovaSeq 6000 reagents
        • Troubleshooting Focus Camera (FTM) system check failure on the NovaSeq 6000
        • Washing the NovaSeq 6000
        • What to do if the NovaSeq 6000 flow cell cannot be loaded during run setup?
        • Where are NovaSeq 6000 system check results located?
        • Xp reagents components and stability on the NovaSeq 6000
        • 测序前准备和检查NovaSeq 6000 流动槽的最佳操作
      • Troubleshooting
        • Best practices for preparing and inspecting NovaSeq 6000 flow cells for sequencing
        • Best practices for starting staggered runs on the NovaSeq 6000
        • How to troubleshoot D:\ drive full on the NovaSeq 6000
        • How to troubleshoot NovaSeq 6000 Process Management errors
        • How to troubleshoot NovaSeq 6000 light bar issues
        • How to troubleshoot NovaSeq 6000 “A component failed during sequencing” error during a Cloud Outage
        • How to troubleshoot Reagent Selector Valve Errors on the NovaSeq 6000
        • How to troubleshoot failed to reach target temperature error on the NovaSeq 6000
        • How to troubleshoot flow cell clamp or vacuum is unable to engage errors when loading flow cells on the NovaSeq 6000
        • How to troubleshoot “A component failed during sequencing” error messages on the NovaSeq 6000
        • NovaSeq 6000 Initialization failed at 93% (NVCS 1.7) or 92% (NVCS 1.5, 1.6)
        • NovaSeq 6000 Run Quality and Best Practices Support Webinar Video
        • Run listed as Uploading to Network or BaseSpace on the NovaSeq 6000
        • Troubleshooting "Component Failed" errors immediately after Pre Run Checks on the NovaSeq 6000
        • Troubleshooting "Instrument Shell has Stopped Working" on the NovaSeq 6000
        • Troubleshooting "Unsupported Cluster Cartridge" warning during Run Setup on the NovaSeq 6000
        • Troubleshooting "flow cell is not sufficiently level" error on the NovaSeq 6000
        • Troubleshooting "ix_exception_id_errno_exist: 'Already Exists' on command" on the NovaSeq 6000
        • Troubleshooting BIM SOUR 2 Handle Position Errors During NovaSeq 6000 System Checks
        • Troubleshooting Black Screen with EFI Shell message on the NovaSeq 6000
        • Troubleshooting CE or Z:\ drive not connecting on the NovaSeq 6000
        • Troubleshooting Fatal error, exiting application. Unable to find device on the NovaSeq 6000
        • Troubleshooting Network errors during run setup on the NovaSeq 6000
        • Troubleshooting NovaSeq 6000 Control Software fails to initialize with Universal Copy Service error
        • Troubleshooting NovaSeq 6000 Reagent Chiller outside acceptable range warning
        • Troubleshooting NovaSeq 6000 failing to initialize control software at 94 95%
        • Troubleshooting NovaSeq 6000 flow cell loading issues Video
        • Troubleshooting NovaSeq 6000 optical alignment errors, BIRD warnings, and Objective Contamination
        • Troubleshooting NovaSeq 6000 reagent RFID failures
        • Troubleshooting Pressure decay or Impedance test stopped with NaN results on the NovaSeq 6000
        • Troubleshooting SAV errors on the NovaSeq 6000
        • Troubleshooting Unable to Start Real Time Analysis on the NovaSeq 6000
        • Troubleshooting an Unable to Generate a Focus Model Error on the NovaSeq 6000
        • Troubleshooting decreased intensity and clusters passing filter at flow cell inlet on NovaSeq 6000
        • Troubleshooting laser coolant temperature errors on the NovaSeq 6000
        • Troubleshooting pre run check errors on the NovaSeq 6000
        • Troubleshooting the "Unable to load recipe" error on the NovaSeq 6000
        • Troubleshooting the large used reagent bottle is full error on the NovaSeq 6000
        • Troubleshooting vacuum failures and flow cell vacuum is no longer engaged message on NovaSeq 6000
        • Troubleshooting “Unable to Register Fiducial” error on the NovaSeq 6000
        • Using expired reagents on the NovaSeq 6000
    • Instrument Administration
      • Reference Material
        • How to add an Administrator account to Windows 10 Operating System on the NovaSeq 6000
        • How to cache credentials for access to Network Storage and verify Read/Write access
        • How to change the Log On As account for the Illumina Universal Copy Service
        • How to change the Windows account type from administrator to standard
        • How to check if a Windows account is a standard or administrator account
        • How to confirm firewall settings and close port 29644 on NovaSeq 6000
        • How to install Windows critical security updates
        • How to switch user accounts on Illumina Windows 10 Sequencing System
      • Troubleshooting
        • Troubleshooting 'Installation failure. Check installed software and try again.' error
        • Troubleshooting Local Run Manager Notification ‘Universal Copy Service does not use the same user’
        • Troubleshooting Windows services menu shows Log On As options greyed out
  • Library Preparation
    • General
      • FAQ
        • Can Illumina RNA Prep with Enrichment library prep and enrichment reagents be purchased separately?
        • Can PhiX and denatured PhiX be stored and used again?
        • Can RSB be used as a substitute for RSB + Tween 20 when sequencing on the NextSeq 1000/2000?
        • Can library preparation reagents be stored in a frost free freezer?
        • Can samples be sent to Illumina for sequencing; does Illumina offer sequencing as a service?
        • Can wells in index plates be used more than once?
        • Catalog/Reference numbers for IDT for Illumina DNA/RNA UD and Illumina DNA/RNA UD Indexes
        • Denature and dilution FAQ for Illumina DNA PCR Free
        • Does library loading differ between MiSeq Micro and Nano flow cells?
        • How much PhiX to spike in for well balanced, base diverse libraries?
        • How to perform library heat denaturation (heat shock) before sequencing?
        • How to prepare < 2 nM libraries for sequencing on NovaSeq X/X Plus
        • Hybridization Buffer (HT1) and Resuspension Buffer (RSB) alternatives and purchasing availability
        • IDT for Illumina TruSeq Unique Dual (UD) Index kit FAQs for kit configurations and usage
        • Indexed Sequencing workflows with 5' to 3' directionality
        • Information about the TruSeq index adapter plate fixture
        • Introducing the Illumina DNA/RNA UD Indexes
        • Link to the Sequencing Methods Explorer
        • Plate layout for the Illumina DNA/RNA UD Indexes (v3)
        • Product page and support page links for Illumina DNA Prep with Enrichment (S) Tagmentation
        • Product page and support page links for Illumina RNA Prep with Enrichment, (L) Tagmentation
        • Product page and support page links for TruSeq DNA Exome
        • Product page and support page links for TruSeq Methyl Capture EPIC
        • Product page and support page links for TruSight Cancer bundled with TruSight Rapid Capture
        • Product page and support page links for TruSight Myeloid
        • Should index reads be performed if only one library is being sequenced?
        • Should indexes be read when sequencing a single library?
        • What are the Illumina sequencing primer sequences?
        • What are the index sequences for the AmpliSeq CD Indexes Large Volume kit for Illumina?
        • What do (S), (M), and (L) mean in Illumina library prep kit names?
        • What is a Single Read (SR), Paired End (PE) reads, and read requirements for sequencing?
        • What is the concentration of Illumina adapters and primers?
        • What is the difference between a single and dual indexed library?
        • What is the minimum library size that can be sequenced?
        • Where are the sequences and plate positions of Illumina indexes?
        • Where to find the reference sequence used for phiX alignment?
        • Which TruSeq index kits come in plate or tube format?
        • Which computer operating systems are compatible with Illumina Experiment Manager (IEM)?
      • Reference Material
        • Adapter dimers的形成原因、影响及去除方法
        • Amplicon Sequencing Introduction Support Webinar Video
        • Bead handling best practices
        • Bead types in Illumina library preparation kits
        • Best practices for library quantification
        • Best practices for manually normalizing library concentrations
        • Best practices for using Sodium Hydroxide with Illumina sequencing systems
        • Bubble products in sequencing libraries: causes, identification, and workflow recommendations
        • Choosing a Library Loading Concentration for Illumina Sequencing Video
        • Compatible and recommended Illumina library types for the NovaSeq 6000 sequencing platform
        • Considerations when migrating non Illumina libraries between sequencing platforms
        • DNA/RNA isolation considerations when using Illumina library prep kits
        • Final library trace examples for the Illumina Library Prep Kits
        • Fusion Genes kits for detection and lists of targeted genes
        • How Can I Tell If I Sequenced Through the Insert? Part 1 Video
        • How Can I Tell If I Sequenced Through the Insert? Part 2 Video
        • How Do I Achieve Consistent Quantitation? Part 1 Video
        • How Do I Achieve Consistent Quantitation? Part 2 Video
        • How Do I Optimize Amplicon Sequencing Data? Part 1 Video
        • How Do I Optimize Amplicon Sequencing Data? Part 2 Video
        • How short inserts affect sequencing performance
        • How to Plan Your First Sequencing Project Support Webinar Video
        • How to Use the Illumina Library Prep Kit Selector Video
        • How to find a Safety Data Sheet
        • How to mitigate index hopping
        • How to see more content and products relevant to your field of interest
        • How to use the Illumina Sequencing Coverage Calculator Video
        • IDT for Illumina DNA/RNA Unique Dual Index Compatibility on the MiniSeq
        • Illumina library prep kits and associated index kits
        • Illumina 接头系列
        • Illumina建库试剂盒和对应的index试剂盒
        • Index content for the TruSeq DNA and TruSeq RNA Single Index kits, Sets A and B
        • Indexed Sequencing Overview for Paired End Flow Cells
        • Introduction to Illumina DesignStudio Support Webinar Video
        • Is it possible to pool different library types in the same sequencing run?
        • Library quantification and quality control quick reference guide
        • Metagenomics Part I Introduction to Library Preparation and Sequencing Support Webinar Video
        • Optimal Cluster Density Best Practices Video
        • PhiX Control v3文库是什么,它在Illumina下一代测序中起到什么作用?
        • Plate layout for TruSeq Combinatorial Dual (CD) indexes
        • Plate layout for TruSeq Unique Dual (UD) indexes
        • Plate layouts for IDT for Illumina DNA/RNA UD Index kits, Sets A, B, C, and D
        • Recommended quality control of FFPE samples for Illumina FFPE supported library preparation kits
        • Resources for getting started with Illumina Next Generation Sequencing (NGS)
        • Sequencing FFPE Samples Introduction Support Webinar Video
        • Sequencing Method Explorer:哪种二代测序(NGS)方法最适合我的研究?
        • Sequencing primer compatibility and recommended library kits for the HiSeq 1000/2000 and 1500/2500
        • Sequencing primer compatibility and recommended library kits for the NextSeq 1000/2000 platforms
        • Sequencing primer compatibility and recommended library types for the HiSeq X and HiSeq 3000/4000
        • Sequencing primer compatibility of Illumina libraries and kit types for NextSeq 500/550 and MiniSeq
        • Sequencing primer compatibility of Illumina libraries and library types for the iSeq 100
        • Sequencing primer compatibility of Illumina libraries and recommended library kit for the MiSeq
        • Spiking custom primers into the Illumina sequencing primers
        • Understanding the differences between Illumina index chemistries and anchor function
        • Understanding unique dual indexes (UDI) and associated library prep kits
        • Using Sequencing Method Explorer to identify suitable NGS methods for research
        • What is the PhiX Control v3 Library and what is its function in Illumina Next Generation Sequencing
        • What sequences do I use for adapter trimming
        • Why pooling libraries at the same concentration does not change the final pool concentration
        • 了解唯一双标签(UDI)与相关建库试剂盒
        • 将定制引物掺入到Illumina测序引物中
        • 手动文库浓度标准化最佳操作
        • 文库定量与质量控制简明指引
        • 是否可以混合不同类型的文库并同时进行测序?
        • 最小化 TruSeq Stranded Total RNA 文库中rRNA污染的最佳操作
        • 末端接头剪切(adapter trimming)时需要用到的序列
      • Troubleshooting
        • Adapter dimers causes, effects, and how to remove them
        • Library QC and Troubleshooting with the Bioanalyzer and Fragment Analyzer Support Webinar Video
        • Preventing Contamination Expert Video Tip Video
        • Troubleshooting elevated PhiX alignment in sequencing runs
    • AmpliSeq
      • FAQ
        • Frequently asked questions for AmpliSeq for Illumina On Demand panels
        • How many reactions are in the AmpliSeq Library Equalizer for Illumina?
        • What is the difference between AmpliSeq for Illumina custom DNA HotSpot and Gene Design Panels?
      • Reference Material
        • AmpliSeq Antimicrobial Resistance Research Panel product, support, and manifest page links
        • AmpliSeq Custom DNA Panel product and support pages
        • AmpliSeq Custom RNA Panel product and support pages
        • AmpliSeq Inborn Errors of Metabolism Research Panel v2 product, support, and manifest page links
        • AmpliSeq On Demand Panel Product and Support Pages
        • AmpliSeq for Illumina Autism Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina BRCA Panel product page and support page links
        • AmpliSeq for Illumina BRCA Plus, Extended Hereditary Breast and Ovarian Research Panel page links
        • AmpliSeq for Illumina Cancer Hotspot v2 Panel product page and support page links
        • AmpliSeq for Illumina Cardiovascular Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Childhood Cancer Panel product page and support page links
        • AmpliSeq for Illumina Colon and Lung Research Panel v2 product, support, and manifest page links
        • AmpliSeq for Illumina Comprehensive Panel v3 product page and support page links
        • AmpliSeq for Illumina Deafness Research Panel v2 product page, support page, and manifest links
        • AmpliSeq for Illumina Dementia Research Gene Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Dermatology Research Panel v2 product page, support page, and manifest links
        • AmpliSeq for Illumina Dysmorphia Dysplasia Research Panel v2 product, support, & manifest page links
        • AmpliSeq for Illumina Ebola Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Focus Panel product page and support page links
        • AmpliSeq for Illumina Gastrointestinal Research Panel v2 product, support, and manifest page links
        • AmpliSeq for Illumina Hearing Loss Research Panel v1 product page, support page, and manifest links
        • AmpliSeq for Illumina Hematology Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Immune Repertoire Panel Plus, TCR beta Panel product and support page links
        • AmpliSeq for Illumina Immune Response Panel product page and support page links
        • AmpliSeq for Illumina Inherited Cancer Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Introduction Support Webinar Video
        • AmpliSeq for Illumina Library Prep, Indexes, and Accessories product page and support page links
        • AmpliSeq for Illumina Long Non Coding RNA Research Panel product, support, and manifest page links
        • AmpliSeq for Illumina Myeloid Panel product page and support page links
        • AmpliSeq for Illumina Neurological Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Noonan Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Ophthalmic Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina Primary Immune Deficiency Research Panel v2 page links
        • AmpliSeq for Illumina Pulmonary Research Panel v2 product page, support page, and manifest links
        • AmpliSeq for Illumina RNA Fusion Lung Cancer Research Panel product, support, & manifest page links
        • AmpliSeq for Illumina RNA Inflammation Response Research Panel page links
        • AmpliSeq for Illumina RNA MAPK Pathway Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina RNA Stem Cell Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina RNA WNT Signaling Pathway Research Panel page links
        • AmpliSeq for Illumina Renal Research Panel v2 product page, support page, and manifest links
        • AmpliSeq for Illumina SARS CoV 2 Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina TB Research Panel product page, support page, and manifest links
        • AmpliSeq for Illumina TCR beta SR Panel product page and support page links
        • AmpliSeq for Illumina Transcriptome Panel product page and support page links
        • Number of libraries per AmpliSeq for Illumina Library PLUS kit for custom and community panels
        • Number of reactions per AmpliSeq for Illumina custom spike in panel order
        • Number of tubes in an AmpliSeq Custom or Community Panel orders
        • Performing a spike in of custom oligos into an AmpliSeq for Illumina Panel
        • Plate layout for AmpliSeq Unique Dual (UD) indexes
        • Plate layouts for Ampliseq Combinatorial Dual (CD) Indexes Sets A, B, C and D
        • Pooling recommendations for the AmpliSeq for Illumina Comprehensive Panel v3
        • Pooling recommendations for the AmpliSeq for Illumina Focus Panel
        • Pooling recommendations for the AmpliSeq for Illumina Myeloid Panel
    • Amplicon Library Prep
      • FAQ
        • Can IDT for Illumina DNA/RNA UD Indexes be used with the Illumina 16S Metagenomics Protocol?
        • Information and protocol for the Illumina 16S Metagenomics Sequencing Library Preparation workflow
        • Information and protocol for the Illumina Fungal Metagenomics Sequencing workflow
        • Overview of the Fungal Metagenomic Sequencing Demonstrated Protocol
      • Reference Material
        • Amplicon Sequencing Assessing the Success of Your Run Support Webinar Video
        • How to use Illumina DesignStudio for Custom Sequencing Panels Video
        • Recommendations for sequencing Illumina 16S libraries with the NextSeq 1000/2000 600 cycle kits
        • What Does a Typical 16S Run Look Like on a MiSeq?
    • Custom Third party Library Prep
      • FAQ
        • Are the NextSeq 1000/2000 Standard SBS Read & Index Primer kits compatible XLEAP SBS Reagents?
        • How do stagger sequences or heterogeneity spacers introduce diversity?
    • DNA Library Prep
      • FAQ
        • Analysis FAQ for Illumina DNA PCR Free libraries
        • BLT PF handling for the Illumina DNA PCR Free workflow questions
        • BLT PF usage FAQ for Illumina DNA PCR Free
        • Bead clean up ratios used in the Illumina 16S demonstrated protocol
        • Bead size selection FAQ for Illumina DNA PCR Free
        • Can FFPE input be used with the Illumina DNA PCR Free library preparation kit?
        • Consumables used in Illumina DNA PCR Free workflow
        • Differences between Illumina DNA Prep (M) Tagmentation (Nextera DNA Flex), Nextera DNA, and Nextera XT kits
        • Does the Flex Lysis Reagent Kit require the purchase of additional Illumina reagents?
        • How does the Illumina/Nextera tagmentation enzyme make sure that both p5 and p7 adapters are added?
        • How to quantify and what is the expected yield for Illumina DNA PCR Free libraries?
        • Illumina DNA PCR Free custom sequencing primer FAQ
        • Index selection and FAQ for Illumina DNA PCR Free
        • Indexing FAQ for Illumina DNA PCR Free libraries
        • Input quantity for Illumina DNA PCR Free libraries
        • Input types FAQ for Illumina DNA PCR Free libraries
        • Instrument, flow cell, and reagent requirement FAQ for Illumina DNA PCR Free libraries
        • Is the Nextera TDE1 enzyme pre loaded with oligos?
        • Library storage FAQ for Illumina DNA PCR Free libraries
        • Product page and support page for Illumina DNA Prep, (M) Tagmentation
        • Product page and support page links for Illumina DNA PCR Free
        • Product page and support page links for Nextera XT
        • Product page and support page links for TruSeq ChIP
        • Qualification/QC FAQ for Illumina DNA PCR Free libraries
        • Saliva collection for Illumina DNA PCR Free library preparation questions
        • Saliva processing for Illumina DNA PCR Free library preparation workflow questions
        • Sample Input for Illumina DNA Prep, (M) Tagmentation Library Preparation Kit
        • Sample batching with the Illumina DNA PCR Free kit questions
        • Samples per sequencing run and coverage FAQ for Illumina DNA PCR Free
        • Sequencing run setup software considerations FAQ for Illumina DNA PCR Free libraries
        • Single or double sided bead clean ups with Illumina DNA PCR Free.
        • Size selection and clean up considerations for TruSeq DNA PCR Free library preparation
        • Standard vs Low Input Workflow selection FAQ for Illumina DNA PCR Free prep
        • Using dried blood spots as input into the Illumina DNA PCR Free library prep kit questions
        • What is the Illumina Lysis Reagent Kit, and when should it be used?
        • What loading concentration is recommended for Illumina DNA Prep on MiSeq v2 kits?
        • When to quantify libraries and method of quantification for Illumina DNA PCR Free libraries
        • Which Nextera Index Kits come in plate or tube format?
        • Whole blood input requirements for Illumina DNA PCR Free
      • Reference Material
        • Best practices for storage of bead normalized Nextera XT libraries
        • Considerations before starting the Illumina DNA PCR Free library preparation
        • Considerations for choosing an Illumina DNA PCR Free library preparation workflow
        • Converting ng/µl to nM when calculating dsDNA library concentration
        • Custom primer requirements for the Illumina DNA PCR Free Prep, Tagmentation kit
        • Double sided size selection and bead clean up
        • Illumina DNA PCR Free Tagmentation Introduction Support Webinar Video
        • Illumina DNA Prep Tagmentation Introduction Support Webinar Video
        • Introducing the Illumina Tagment DNA TDE1 Enzyme and Buffer Kits
        • Library quantification and manual normalization of Nextera XT libraries
        • Nextera XT Sample Preparation and Usage Support Webinar Video
        • Nextera XT input considerations
        • Plate layout for Nextera DNA Combinatorial Dual (CD) indexes
        • Product page and support page for TruSeq DNA Nano
        • Product page and support page for TruSeq DNA PCR Free
        • Product page and support page links for Illumina Complete Long Read Prep (ICLR), Human
        • Sequencing information for Illumina DNA Prep (M) Tagmentation libraries
        • What reagents are available for ATAC Seq library preparation?
        • i7 and i5 indexes in each Nextera XT index kit
        • 双链DNA文库浓度的计算:从质量浓度(ng/µl)转化为摩尔浓度(nM)的换算公式
      • Troubleshooting
        • Overtagmentation of Nextera XT libraries
        • Undertagmentation of Nextera XT libraries
    • Enrichment Based Library Prep
      • FAQ
        • Design and coverage of the Respiratory Virus Oligos Panel v2 (RVOP v2)
        • Frequently Asked Questions for Illumina FFPE DNA Prep with Exome 2.5 Enrichment
        • How many samples can be prepared with the Respiratory Pathogen ID/AMR Enrichment Panel (RPIP) Kit?
        • How to pool Illumina DNA Prep with Exome 2.5 libraries on the NextSeq series and NovaSeq 6000?
        • Illumina RNA Prep Tagmentation (L) with Enrichment Input FAQs
        • Illumina RNA Prep Tagmentation (L) with Enrichment Protocol FAQs
        • Illumina RNA Prep Tagmentation (L) with Enrichment Sequencing FAQs
        • Is there a gene list for the Illumina Coding Exome Panel?
        • Product page and support page for the Respiratory Pathogen ID/AMR Enrichment Panel (RPIP) Kit
        • Product page and support page links for Illumina DNA Prep with Exome 2.5 Enrichment
        • Viral Surveillance Panel (VSP) probes and panel design frequently asked questions (FAQs)
        • Viral Surveillance Panel (VSP) reagents and workflow frequently asked questions (FAQs)
        • Viral Surveillance Panel (VSP) sequencing and analysis frequently asked questions (FAQs)
        • What are the volume and number of enrichment reactions for Illumina Exome Panel (CEX)?
        • What read length and coverage depth should be used for the Urinary Pathogen ID/AMR Panel?
      • Reference Material
        • Final library QC and run setup with the Respiratory Virus Oligos Panel v2 (RVOP v2)
        • Illumina DNA Prep with Enrichment Introduction Support Webinar Video
        • Illumina DNA Prep with Enrichment third party probe panel requirements
        • Illumina DNA Prep with Enrichment – Tagmentation: Best Practices and Troubleshooting Video
        • Illumina DNA Prep with Enrichment(原Nextera Flex for Enrichment)第三方panel要求
        • Illumina RNA Prep with Enrichment Introduction Support Webinar Video
        • Library quantification and QC for Illumina TruSight RNA Pan Cancer libraries
        • Product page and support page links for Illumina Cell Free DNA Prep with Enrichment
        • Product page and support page links for Illumina Complete Long Reads with Enrichment (ICLRE), Human
        • TruSight RNA Fusion Panel product page and support page links
        • TruSight RNA Pan Cancer Panel product page and support page links
        • Understanding library pooling for Illumina enrichment kits
    • Illumina Single Cell RNA Prep
      • FAQ
        • Can vortexing damage cells/nuclei when generating emulsions in the Illumina Single Cell workflow?
        • Why is Illumina Single Cell sequencing read depth based on input cells?
      • Reference Material
        • 0.8X bead cleanup to remove adapter dimers from Illumina Single Cell 3’ RNA Prep libraries
        • Assessing cDNA QC in Illumina Single Cell 3’ RNA Prep
        • Assessing library QC in Illumina Single Cell 3’ RNA Prep
        • Best Practices for Nuclei Isolation with alternative nuclei isolation protocols for Illumina Single Cell
        • Best practices for cell preparation for Illumina Single Cell prep
        • Best practices for using Illumina Single Cell Nuclei Isolation Kits for Illumina Single Cell kits
        • Cell input and volume loading recommendations for Illumina Single Cell 3’ RNA Prep
        • Differences between V4.0PLUS PIPseq and Illumina Single Cell (formerly PIPseq V)
        • Extending cDNA storage time in Illumina Single Cell 3' RNA Prep
        • Illumina Single Cell 3' RNA Preparation library sequencing recommendations and guidelines
        • Illumina Single Cell 3’ RNA Prep cDNA QC best practices
        • Illumina Single Cell 3’ RNA Prep library QC best practices
        • Representative cDNA QC traces for Illumina Single Cell 3’ RNA Prep
        • Representative library QC traces for Illumina Single Cell 3’ RNA Prep
        • Sample Enrichment Best Practices for Illumina Single Cell 3' RNA Prep
        • Selecting cycle numbers for High and Low RNA sample types with Illumina Single Cell RNA prep kits
        • Shelf life of Illumina Single Cell 3' RNA Prep kits
        • The importance of pilot studies for Illumina Single Cell RNA Preparation prior to workflow changes
    • RNA Library Prep
      • FAQ
        • Are technical replicates needed for TruSeq Stranded RNA Seq experiments?
        • Are the IDT for Illumina RNA Index Anchors the same in every well of the plate?
        • COVIDSeq timing and logistics
        • Differences with TruSeq Stranded RNA LS and HS protocols and single and dual index adapters
        • Directional sequencing and strandedness for TruSeq Stranded Total RNA and mRNA libraries
        • Frequently asked questions regarding the Ribo Zero Plant and Globin kits
        • General information on Ribo Zero Plus Microbiome
        • Guidance for RNA isolated from PAXgene Blood RNA kit
        • Illumina RNA Prep Tagmentation (L) with Enrichment General FAQs
        • Illumina Stranded Total RNA Prep Ligation with Ribo Zero Plus FAQs
        • Illumina Stranded mRNA Prep Ligation General FAQs
        • Illumina Stranded mRNA Prep Ligation Input FAQs
        • Illumina Stranded mRNA Prep Ligation Sequencing FAQs
        • Input FAQs for the Illumina TruSight RNA Pan Cancer library preparation kit
        • Input recommendations and considerations for COVIDSeq (RUO) library preparation
        • Overview of the IDT for Illumina RNA UD Index Sets, Ligation
        • Product page and support page links for Illumina Stranded Total RNA with Ribo Zero Plus
        • Product page and support page links for TruSeq Stranded Total RNA
        • Protocol FAQs for Illumina Stranded Total RNA Prep Ligation with Ribo Zero Plus
        • Ribo Zero Plus rRNA Depletion Kit FAQs
        • Sequencing FAQs for Illumina Stranded Total RNA Prep Ligation with Ribo Zero Plus
        • Sequencing TruSeq Small RNA libraries
        • Sequencing depth and read length considerations for TruSeq Stranded RNA libraries
        • Shelf life for the COVIDSeq library preparation kit
        • TruSeq RNA v2 product and support page links
        • TruSeq Small RNA Product and Support Pages
        • TruSeq Small RNA alternative T4 RNA Ligase 2, Deletion Mutant supplier
        • TruSeq Small RNA input best practices
        • TruSeq Stranded RNA Kit FAQs: AMPure clean up and library size
        • TruSeq Stranded RNA kit storage and freeze/thaw recommendations
        • TruSeq Stranded RNA library preparation input requirements
        • TruSeq Stranded mRNA Product and Support Pages
        • What are the main differences between TruSeq Stranded and Illumina Stranded kits?
        • What volume of TruSeq RNA UD indexes should be used during TruSeq Stranded RNA library preparation?
        • mRNA purification and rRNA removal information for TruSeq Stranded RNA workflows
      • Reference Material
        • Anchor ligation best practices for Illumina Stranded mRNA and Total RNA Prep Ligation workflows
        • Best Practices for Ribo Zero Depletion using the TruSeq Stranded Total RNA Protocol
        • Best practices for handling magnetic beads used with Illumina RNA library preparation kits
        • Best practices to minimize rRNA contamination in TruSeq Stranded Total RNA libraries
        • Capture and wash best practices for Illumina RNA Prep with Enrichment (L) Tagmentation
        • Considerations for RNA Seq read length and coverage
        • General best practices for Illumina RNA library preparation kits
        • Library preparation options for sequencing the coronavirus SARS CoV 2 (associated with COVID 19)
        • PhiX requirements for sequencing Illumina Stranded RNA libraries
        • Post amplification clean up best practices for Illumina RNA Prep with Enrichment (L) Tagmentation
        • Product page and support page for Illumina Stranded mRNA Prep, Ligation
        • RNA Sequencing Part I Intro to Illumina's RNA Library Preparation Workflows Support Webinar Video
        • RNA Sequencing Part II Best Practices for Illumina's RNA Prep Protocols Support Webinar Video
        • RNA handling best practices for Illumina RNA library preparation kits
        • RNA测序读长及测序深度的选择
        • Ribo Zero Plus depletion best practices
        • Small RNA Seq Part I Best Practices Support Webinar Video
        • Small RNA Seq Part II Best Practices Support Webinar Video
        • Species compatibility table for Ribo Zero Human/Mouse/Rat and Ribo Zero Gold
        • Species compatibility table for Ribo Zero Plant
        • Types of small RNA and the need for a separate small RNA kit
        • Which reads map to each strand in Stranded RNA workflows, and how is strandedness achieved?
        • rRNA Depletion using Illumina Ribo Zero Plus
      • Troubleshooting
        • How to assess rRNA depletion success before sequencing?
        • Impact of RNA degradation on mRNA seq data
    • Trusight Oncology Tumor
      • FAQ
        • Can DNA fusion calling be performed with TruSight Oncology 500 (TSO500) Tissue data?
        • How many freeze/thaw cycles can TruSight Tumor 15 (TST15) library preparation reagents undergo?
        • Product page and support links for TruSight Oncology 500 (Solid)
        • Product page and support links for TruSight Oncology 500 High Throughput (TSO500 HT)
        • Product page and support links for TruSight Oncology 500 ctDNA
        • Product page and support links for TruSight Oncology UMI Reagents
        • Temperature sensitivity and reagent handling FAQ for TruSight Oncology 500 (TSO500) ctDNA
        • TruSight Oncology 500 ctDNA liquid biopsy information
      • Reference Material
        • Best practices for LNB1 handling in bead based normalization for TruSight Oncology 500 workflows
        • Freeze thaw stability of TruSight Oncology 500 (TSO500) ctDNA input and reagents
        • Freeze thaws and kit stability for TruSight Oncology 500 automation library preparation kits
        • General information regarding RNA samples in the TruSight Oncology 500 (TSO500) workflow
        • Instrument compatibility for sequencing TruSight Oncology 500 (TSO500) ctDNA libraries
        • Limit of detection (LOD) for the TruSight Oncology 500 (TSO500) ctDNA assay
        • Sequencing and coverage requirements for TruSight Oncology 500 (TSO500) ctDNA
        • Supported pooling plexities for TruSight Oncology 500 High Throughput (TSO500HT) libraries
        • TruSight Oncology 500 and TruSight Oncology 500 HT Introduction & Overview Support Webinar Video
        • TruSight Tumor 170 product page and support page links
  • Microarray
    • General
      • FAQ
        • Can Infinium reagents be freeze thawed?
        • Can PGx Microarray Analysis be run without interpretation if interpretation has been quoted?
        • Does DRAGEN Array have a Call Rate limit to estimate gender?
        • How long can bisulfite converted DNA be stored in 20°C for use in Infinium Methylation arrays?
        • How to format file path for DRAGEN Array IDAT sample sheet and GTC sample sheet for Windows OS
        • How to select GenTrain version in GenomeStudio 2.0
        • Infinium Assay Modifications for FFPE samples for Genotyping Arrays
        • Is a sample sheet required to run DRAGEN Array?
        • Is it possible to add or remove fields in DRAGEN Array Cloud Genotyping Final Report?
        • What GTC files can be used with DRAGEN Array Local?
        • What is the correct order of addition of Infinium Amplification reagents?
        • What is the expiration timeline for Infinium BeadChips?
        • What is the limit of detection for LOH/AOH for the CytoSNP 850K array?
        • Which fluorometric quantification method to use for quantifying input DNA for the Infinium Assay?
      • Reference Material
        • Annotation database versions for use with BlueFuse Multi v4.4+
        • BlueFuse Multi Introduction to the Cytochip Module Support Webinar Video
        • CNV Analysis in GenomeStudio using cnvPartition Plug in and Illumina Genome Viewer
        • Can GenomeStudio 2.0 genotyping projects be merged?
        • Can Genotype Call (GTC) files be used as input for GenomeStudio?
        • Comparison of GenomeStudio software versions
        • Confirming identities of replicate & matched samples with SNP targeted assays in methylation arrays
        • CytoSNP 850K v1.3 manifest is updated to revisions D1 and D2
        • DMAP files for all Infinium Arrays are available for two (2) years after the date of manufacture
        • DNA Input Guidelines for Infinium MethylationEPIC Arrays
        • DNA strand designations
        • DesignStudio Microarray Assay Designer Input Target File Templates
        • Evaluation of Infinium Staining Controls in the GenomeStudio Controls Dashboard
        • GenomeStudio Advanced Analysis Tools Support Webinar Video
        • GenomeStudio Genotyping Creating Custom Cluster Files for Infinium Arrays Support Webinar Video
        • GenomeStudio Genotyping Evaluating Infinium Assay Controls Support Webinar Video
        • GenomeStudio Genotyping Introduction Support Webinar Video
        • Guidelines for Sample Preparation for Infinium Genotyping Assay DNA input
        • How to Degas the Te flow Video
        • How to Format Sample Sheet for GenomeStudio Genotyping Video
        • How to Format a Sample Sheet for a GenomeStudio Methylation Project Video
        • How to access custom array product files (manifest and product definition files) in MyIllumina
        • How to calculate and import LogRDev into a GenomeStudio Project
        • How to change the date format in the GenomeStudio Final Report in the Processing Date Field
        • How to degas the Te flow
        • How to evaluate the targeted gene amplification (TGA) for Infinium BeadChips with Enhanced PGx Content
        • How to filter for or exclude a list of a large number of SNPs in GenomeStudio
        • How to generate VCF from Illumina BeadArray data
        • How to generate a Final Report and export a Data Table in GenomeStudio 2011.1 Methylation Module
        • How to interpret DNA strand and allele information for Infinium genotyping array data
        • How to properly configure Decode File Client for networks using proxy servers
        • How to share BaseSpace Microarray project data
        • How to use the Auxiliary File for Infinium BeadChips with Enhanced PGx Content
        • How to use the PLINK Report Plug in in GenomeStudio
        • Improve Infinium data with these updated XStain glass back plate care recommendations
        • Infinium Array Best Practices Support Webinar Video
        • Infinium Assay CNV Analysis using GenomeStudio or BlueFuse Multi Software Support Webinar Video
        • Infinium EX Methylation DNA input guidelines and compatible bisulfite conversion kits
        • Infinium Genotyping Intro to GenomeStudio 2.0 Polyploid Genotyping Module Support Webinar Video
        • Infinium Genotyping Introduction to Beeline 2.0 and Data Analysis Workflows Support Webinar Video
        • Infinium Genotyping Introduction to DesignStudio Microarray Assay Designer Support Webinar Video
        • Infinium Genotyping Strandology Strand designations in Infinium Manifests Support Webinar Video
        • Infinium HD Methylation assay workflow for fresh/frozen versus FFPE samples
        • Infinium Methylation Intro to GenomeStudio and BeadArray Controls Reporter Support Webinar Video
        • Infinium Methylation450K manifest column headings
        • Infinium MethylationEPIC Manifest Column Headings
        • Infinium MethylationEPIC v2.0 Manifest Column Headings
        • Infinium Mouse Methylation BeadChip GenomeStudio controls interpretation
        • Infinium Mouse Methylation Beadchip manifest column headings
        • Infinium genotyping manifest column headings
        • Infinium workflow how to prepare bleach solution (sodium hypochlorite)
        • Infinium基因分型芯片manifest文件中Chr或MapInfo列的值为0时代表什么意思?
        • Manifestology Deciphering Illumina BeadArray Manifests Support Webinar Video
        • Preparation, storage, and use of 95% formamide + EDTA in Infinium assays
        • Proper care of Tecan/IAPS with IAC robot fluidics
        • Recommendations for Infinium Array XC4 reagent use and storage
        • Sample sheet guidelines for GenomeStudio
        • Simple guidelines for identifying top/bottom (TOP/BOT) strand and A/B allele
        • Tecan/IAPS with IAC Power Cycle Instructions
        • The correct storage temperature for Infinium BeadChips is 2 8°C
        • Tips and tricks for downloading DMAPs using the Decode File Client
        • Types of reports generated in GenomeStudio
        • What does Chr or MapInfo = 0 mean in Infinium genotyping array manifest files?
        • Where to find required license keys / serial numbers for installation of GenomeStudio 2011.1
        • Which bisulfite conversion kit should be used for the Infinium Methylation arrays?
        • Which files are required and optional when creating a GenomeStudio project?
        • Why there may be multiple assays targeting the same SNP marker in array manifests
        • XStain glass back plate care recommendations for Infinium EX Assays
        • 所有Infinium 芯片的DMAP文件自生产之日起两年内可下载
        • 确认TOP/BOT链和A/B等位基因的基本规则
      • Troubleshooting
        • A quick visualization method to help determine the sex of given samples in a GenomeStudio Methylation project
        • Create a batch file for simple BeadChip accessioning to Illumina Microarray Analytics PGx Analysis
        • Decode File Client Troubleshooting Guide
        • How to check Infinium samples for possible cross sample contamination in GenomeStudio
        • How to obtain Unmethylated and Methylated signal in GenomeStudio for each CpG in MethylationEPIC Array
        • Hybridization and X stain Infinium Assay Troubleshooting Guide
        • Important information about using 12 digit BeadChip barcodes in GenomeStudio sample sheets
        • Precipitation and Resuspension Troubleshooting Guide in Infinium Assay
        • Single sample group formation to reduce GenomeStudio Methylation Module crashing during analysis
        • Troubleshooting "Error in reading file Normalization Transformation incorrect version" in Array ACLI
        • Troubleshooting "Unknown cluster statistics version" error in GenomeStudio 2011.1
        • Troubleshooting the Infinium HD FFPE QC Assay Protocol
        • What are the ch probes in the MethylationEPIC Array manifest?
        • What is the correct format for DRAGEN Array IDAT CSV Sample Sheet?
    • Ancillary Array Equipment
      • FAQ
        • What are the dimensions of the Infinium hybridization oven?
      • Reference Material
        • Updated guidance for using new blue Infinium Staining Set
    • Hamilton
      • Reference Material
        • Infinium Amplification System (IAS Hamilton) power cycle instructions
    • IAPS
      • Reference Material
        • Proper care of IAPS with ILASS robot fluidics
        • Tecan/IAPS with ILASS Power Cycle Instructions
    • LIMS
      • Reference Material
        • Investigation of Log4j Vulnerability with Illumina LIMS
        • The required version of Java for Illumina LIMS is Java 8 for the foreseeable future
    • NextSeq 500/550
      • FAQ
        • Which Infinium BeadChip types can be scanned using the NextSeq 550?
      • Reference Material
        • Scan features differences between the iScan and NextSeq 550
    • Tecan
      • FAQ
        • Cleaning agents specifications and applications for Tecan (LiHa and RoMa) parts
      • Reference Material
        • Investigation of Log4j Vulnerability with Tecan and Hamilton Liquid Handlers
    • iScan
      • FAQ
        • Can a single Autoloader/iScan run contain multiple types of beadchips?
        • Can an iScan send notifications when it has completed scanning Infinium beadchips?
        • How to determine the iScan Control Software version
        • What is the required iScan Control Software version and scan setting for Infinium EX BeadChips?
      • Reference Material
        • How to set up Autoconvert in the iScan Control Software
        • Infinium Protocol Video
        • Port Reset and Power Cycle Sequence for iScan or HiScan, without an AutoLoader
        • Power Cycle and Port Reset Sequence for one iScan with one AutoLoader
        • Power Cycle and Port Reset Sequence for two iScans and one AutoLoader
        • Using network file shares for data input and output in iScan Control Software (ICS)
      • Troubleshooting
        • How to check for corrupt DMAPs before scanning BeadChips using the iScan
  • Software
    • General
      • FAQ
        • Does TruSight Oncology 500 (TSO500) use a segmentation algorithm to determine the genomic coordinates of a copy number call?
        • How is zygosity assigned for mitochondrial variant calls with DRAGEN?
        • How to invite users to a Project in Illumina Connected Analytics v2
        • How to run the DRAGEN MSI Pipeline
        • How to use the 'OverrideCycles' setting in the Run Planning User Interface
        • Is there a certain number of times that users can requeue local analysis?
        • Which orientation are the indexes in Top_Unknown_Barcodes output from BclConvert?
        • Why are underscores in sample names changed to dashes in the FASTQ file names?
      • Reference Material
        • Adapter trimming Why are adapter sequences trimmed from only the 3' ends of reads
        • BaseSpace FASTQ Processing Tools for Data Analysis Support Webinar Video
        • Creating a custom genome for NovaSeq X Series
        • FASTQ files explained
        • FASTQ文件解读
        • Generating checksums for a file
        • Guidelines for reverse complementing i5 sequences for demultiplexing
        • How to avoid Ns in small RNA or short reads when running BCL Convert
        • How to convert a custom BED file to a manifest file for enrichment analysis
        • How to realign a CRAM file to a new reference with DRAGEN
        • How to set OverrideCycles values for variable index sequence lengths on the NovaSeq X/X Plus
        • How to unlock BioSamples in BaseSpace using BaseSpace Command Line Interface (CLI)
        • How to use Exome 2.5 Panel of Normals reference for germline deletion/duplication analysis
        • Illumina DRAGEN Bio IT Platform What is new with version 3.10 updates Support Webinar Video
        • Illumina DRAGEN Bio IT Platform What is new with version 3.9 updates Support Webinar Video
        • Illumina DRAGEN Bio IT Platform Ultra Rapid Analysis of Next Generation Data Support Webinar Video
        • Illumina DRAGEN Bio IT Platform What is new with version 3.5 updates Support Webinar Video
        • Illumina DRAGEN Bio IT Platform What is new with version 3.6 updates Support Webinar Video
        • Illumina DRAGEN Bio IT Platform What is new with version 3.7 Support Webinar Video
        • Illumina DRAGEN Bio IT Platform What is new with version 3.8 updates Support Webinar Video
        • Illumina DRAGEN v4.0 Unlock the Full Potential of Genomics Support Webinar Video
        • Information on leading r for UMIs when demultiplexing NextSeq 1000/2000 or NovaSeq X series data with BCL Convert
        • Instructions on how to restart run upload to BaseSpace using BaseSpace Broker
        • Investigation of Log4j Vulnerability status for Illumina off instrument software products
        • Investigation of Log4j Vulnerability with the Illumina DRAGEN Bio IT Platform
        • Investigation of Log4j Vulnerability
        • Maximum number of cycles for index reads on the NovaSeq X Series
        • Metagenomic Sequencing Introduction to Data Analysis Support Webinar Video
        • NextSeq 1000/2000 Introduction to Analysis with DRAGEN Support Webinar Video
        • Sequencing Data Analysis Introduction to Key Concepts Support Webinar Video
        • Trimming T overhang options for Illumina Stranded mRNA and Illumina Stranded Total RNA workflows
        • TruSight Oncology 500 Assays and Analysis Options
        • Upgrading from bcl2fastq to BCL Convert
        • Using an N wildcard in index sequences in different Illumina FastQ generation software
        • Why is allowing mismatches when demultiplexing desirable?
      • Troubleshooting
        • Does the DRAGEN pipeline support VQSR (Variant Quality Score Recalibration)?
        • How to troubleshoot a "None of the specified endpoints were reachable" error in Local Run Manager
        • Illumina Connected Analytics (ICA) kernel cannot connect in a Bench Workspaces
        • Options for demultiplexing libraries with different index lengths in the same sequencing run
        • Sample specific nucleotide error bias estimation filter and systematic noise filter in DRAGEN
        • Troubleshooting LRM analysis module not available at run start on NextSeq 500/550
    • 3rd Party Software
      • FAQ
        • Information Regarding OpenSSL v3 Vulnerability
      • Reference Material
        • How to upload files to Illumina Kiteworks using command line tools
    • Cloud Software
      • FAQ
        • Are the files for SAV available from BaseSpace if the run was performed with only Run Monitoring?
        • BaseSpace Sequence Hub archival storage FAQs
        • BaseSpace v7.12 update frequently asked questions
        • Can BaseSpace files be transferred directly to AWS (Amazon Web Services)?
        • Coverage and frequency requirements for variants in FASTA output from the DRAGEN COVID Lineage app
        • Different coverage reports from the DRAGEN Enrichment analysis
        • How does BaseSpace Command Line Interface (CLI) check the integrity of file uploads?
        • How to archive and retrieve data in BaseSpace using BaseSpace Command Line Interface (CLI) commands?
        • How to generate Audit Logs in BaseSpace Sequence Hub?
        • How to requeue FASTQ Generation using BCL Convert on BaseSpace for the NextSeq 1000/2000
        • How to run the DRAGEN PopGen app on BaseSpace?
        • How to transfer runs/datasets between different regional servers using BaseSpace CLI
        • How to use a custom virus primer BED file with the DRAGEN COVID Lineage app on BaseSpace
        • How to use an API call to download FastQ files from BaseSpace
        • How to view files from Illumina Connected Analytics in Integrative Genomics Viewer
        • Running DRAGEN Amplicon 3.10.4 on BaseSpace on a single sample type with a hg38 reference
        • What are the different BaseSpace Account Types?
        • What is the BaseSpace data deletion policy?
        • What is the process for renewing a BaseSpace Professional Workgroup account?
      • Reference Material
        • BaseSpace 16S Metagenomics App General Information
        • BaseSpace Command Line Tools for Basic Analysis Part I Support Webinar Video
        • BaseSpace Command Line Tools for Basic Analysis Part II Support Webinar Video
        • BaseSpace Data Model Explained
        • BaseSpace Informatics Suite Intro to Cohort Analyzer and Correlation Engine Support Webinar Video
        • BaseSpace Sequence Hub Introduction and Analysis Overview Support Webinar Video
        • BaseSpace Sequence Hub Prep Tab How to create a custom library prep kit
        • BaseSpace Sequence Hub informational resources
        • BaseSpace Sequence Hub server instances explained
        • DRAGEN Enrichment App in BaseSpace
        • DRAGEN Metagenomics Pipeline in BaseSpace general information
        • Enrichment Data Analysis Introduction Support Webinar Video
        • How to Analyze Data using BaseSpace DRAGEN COVID Lineage App Video
        • How to Requeue Analysis for a NextSeq 1000/2000 run using BaseSpace BCL Convert Video
        • How to Requeue a Run using BaseSpace Sequence Hub Video
        • How to accept BaseSpace transfer ownership requests in a workgroup context
        • How to authenticate BaseSpace CLI to another region or Enterprise domain
        • How to authenticate BaseSpace CLI to workgroup
        • How to change ownership of a BaseSpace Professional Workgroup or Enterprise Domain
        • How to concatenate the FASTQ files from different lanes
        • How to configure Single Sign On (SSO) for an Illumina Enterprise domain using Azure
        • How to configure Single Sign On (SSO) for an Illumina Enterprise domain using Okta
        • How to download FASTQs from specific lanes using Basespace CLI
        • How to download only FASTQs from a BaseSpace project using BaseSpace CLI
        • How to download specific file types when downloading runs from BaseSpace using BaseSpace CLI
        • How to edit a sample sheet and requeue an analysis in BaseSpace Sequence Hub
        • How to edit sample indexes in BaseSpace Sequence Hub PrepTab
        • How to find the Demultiplexing Summary and SampleSheetUsed in BaseSpace?
        • How to generate TruSight Software Suite (TSS) API keys
        • How to get started with BaseSpace Command Line Interface (CLI) Video
        • How to import files into a BaseSpace Project using the web Interface
        • How to install the BaseSpace Sequence Hub Downloader on Mac OS
        • How to invite users to a workgroup on BaseSpace Sequence Hub (Professional or Enterprise tier)
        • How to launch any app in BaseSpace using BaseSpace Command Line Interface (CLI)
        • How to launch the DRAGEN COVID Lineage app using BaseSpace CLI?
        • How to manage status.illumina.com subscriptions
        • How to requeue (re launch) the autolaunch analysis on BaseSpace
        • How to requeue analysis of a NextSeq 1000/2000 run in BaseSpace Sequence Hub
        • How to set the default location for uploaded runs to BaseSpace
        • How to share BaseSpace Sequence Hub sequencing data from enterprise domain to public domain
        • How to share BaseSpace sequencing runs and project data using 'Get Link' option
        • How to transfer data in BaseSpace from Public Domain to Enterprise Domain
        • How to unlock a Biosample in BaseSpace that is locked due to Biosample Data Aggregation
        • How to upload a run to BaseSpace using BaseSpace Command Line Interface (CLI)
        • How to upload and download FASTQ files to BaseSpace with BaseSpace CLI
        • How to use filters with Variant Interpreter
        • How to use the DRAGEN TSO500 v1.1/DRAGEN TSO500 ctDNA v1.2 pipelines on ICA using FASTQ files
        • How to use the Resources page to add custom reference files for Run Planning for NovaSeq X/X Plus runs
        • How to use the TruSight Software Suite (TSS) CLI uploader
        • Instructions for using BaseSpace CLI on Windows to upload runs
        • Investigation of Log4j Vulnerability with BaseSpace Sequence Hub (BSSH) Cloud
        • Investigation of Log4j Vulnerability with Illumina Connected Analytics (ICA)
        • Investigation of Log4j Vulnerability with TruSight Software Suite (TSS)
        • Panel of Normals TruSight Hereditary Cancer Panel datasets for copy number variations in BaseSpace
        • RNA Sequencing Part III Introduction to Analysis Support Webinar Video
        • Reference genome and target regions BED file for the DRAGEN PopGen app
        • Transferring data between a personal account and a Professional workgroup in BaseSpace Sequence Hub
        • Troubleshooting demultiplexing issues using BaseSpace Sequence Hub and bcl2fastq2 v2.17+
        • TruSight Oncology 500 version 2 Analysis Overview Support Webinar Video
        • Uploading Runs BaseSpace Command Line Interface (CLI) Video
        • Uploading and downloading FASTQ files with BaseSpace CLI Video
        • What is restricted when a BaseSpace Basic user exceeds 1TB storage limit
        • Where data copied from BaseSpace to ICA gets stored on ICA
        • Which BaseSpace apps and features use Illumina Connected Analytics
        • 使用BaseSpace基因云计算平台和bcl2fastq2 2.17以及以上版本软件时,如何排查拆分异常情况
      • Troubleshooting
        • BaseSpace Command Line Interface upload failure with request signature error
        • BaseSpace and Proactive outage resource page
        • Creating custom reference genomes (non human) to use with DRAGEN apps on BaseSpace Sequence Hub
        • DRAGEN Imputation App v 4.0.3 on BaseSpace
        • Details about DRAGEN Metagenomics Kraken2 Database
        • Emedgene troubleshooting information request form
        • How to demultiplex mixed libraries on the same lane in BaseSpace
        • How to download files needed for Sequencing Analysis Viewer from BaseSpace using BaseSpace CLI
        • How to recover a BaseSpace password reset email
        • How to restart Universal Copy Service when a run is stuck uploading to BaseSpace Sequence Hub
        • How to review bsshoutput.json to assess BaseSpace file project mapping from Instrument Autolaunch Analysis
        • Requirements for uploading FASTQ Files to BaseSpace via web interface
        • Troubleshooting "Failed to validate certificate" error when launching IGV BaseSpace Application
        • Troubleshooting DRAGEN analysis error UMI processing is enabled but QNAME does not have UMI section
        • Troubleshooting Illumina Service Connector not connected for Window computer
        • Troubleshooting emptying the trash in BaseSpace Sequence Hub
        • Understanding how instrument autolaunch analysis maps to BaseSpace projects
        • What to do if a BaseSpace analysis is stuck or stalled running
        • Why an appsession API call may only returning a subset of datasets from BaseSpace
    • On Instrument Analysis Software
      • FAQ
        • Can a run be started on the NovaSeq X/X Plus while an analysis is ongoing?
        • Can the MiSeq System generate FASTQ files?
        • MiSeq Reporter Common Questions
      • Reference Material
        • Allowed characters for Run Names and Sample IDs in Local Run Manager v3
        • Comparison of MiSeq Reporter and Local Run Manager analysis workflows
        • Connecting remotely to Local Run Manager v4 on instrument
        • How to Specify Adapters for Trimming in Local Run Manager
        • How to add a Custom Reference Genome in Local Run Manager
        • How to generate FASTQ files for index reads in MiSeq Reporter
        • How to generate FASTQ files from an incomplete run in MiSeq Reporter
        • How to requeue analysis of a run with MiSeq Reporter
        • How to set up an AmpliSeq for Illumina run using Local Run Manager v1.3 for MiniSeq
        • How to use a custom library prep kit in Local Run Manager v2
        • How to use custom library prep and index kits with Local Run Manager v3 and v4
        • Local Run Manager How to create FASTQ files for index reads
        • Local Run Manager v2 (Research Use Only) Introduction On and Off Instrument Support Webinar Video
        • Local Run Manager v3 with MiSeq Control Software v4 Introduction Support Webinar Video
        • Local Run Manager: 如何利用不完整的测序结果生成FASTQ文件
        • Local Run Manager: 如何对已经完成的测序进行重新分析(Requeue)
        • Troubleshooting demultiplexing issues using Local Run Manager
        • Troubleshooting demultiplexing issues using MiSeq Reporter
        • Troubleshooting demultiplexing issues using onboard DRAGEN on the NextSeq 1000/2000
        • Using Illumina Experiment Manager (IEM) to Create a Sample Sheet for Illumina Libraries Video
        • 如何使MiSeq Reporter生成Index Reads 的FASTQ文件
        • 如何使用MiSeq Reporter从未完成的run中创建出FASTQ文件
        • 如何使用MiSeq Reporter重新分析一个run?
        • 如何将桌面测序仪和Local Run Manager与网络存储位置进行连接
      • Troubleshooting
        • Creating a custom DRAGEN reference genome for NextSeq1000/2000 analysis
        • Generate FASTQ from an incomplete run in Local Run Manager
        • How to remove a BCL file from analysis in MiSeq Reporter or Local Run Manager
        • Unlocking an account or resetting the password on Local Run Manager version 4
    • On Premises Software
      • FAQ
        • How to avoid Ns in small RNA reads or short reads after running bcl2fastq2?
        • How to calculate the DRAGEN license quota
        • How to cold boot or power cycle a DRAGEN server?
        • How to find the FPGA serial number on a DRAGEN server?
        • How to generate FASTQs for a run without specifying indexes using BCL Convert
        • How to output both gVCF and VCF in a single DRAGEN run?
        • How to use a custom cross contamination VCF file with DRAGEN
        • Visualizing the DRAGEN Evidence BAM in Integrative Genomics Viewer (IGV)
      • Reference Material
        • BCL Convert and index UMIs How to demultiplex samples and output a UMI FASTQ
        • Bcl2Fastq v2+Introduction Support Webinar Video
        • Considerations for using a DRAGEN Server with an automated job scheduler
        • DRAGEN Bio IT Platform v3 Oracle 8 upgrade instructions
        • DRAGEN Bio IT Platform v4 Oracle 8 upgrade instructions
        • DRAGEN TSO500 Analysis on Illumina Connected Analytics Video
        • DRAGEN TruSight Oncology 500 (TSO500) co install options
        • How to add a custom library prep kit to Illumina Experiment Manager
        • How to create a Project connector in Illumina Connected Analytics Video
        • How to demultiplex a run without using either the i7 index or the i5 index using bcl2fastq2
        • How to demultiplex a sequencing run without using either the i7 or the i5 index using BCL Convert
        • How to demultiplex multiple library types on the same run with multiple lanes using bcl2fastq2
        • How to install an Illumina Connected Analytics service connector on Linux Video
        • How to install an Illumina Connected Analytics service connector on Windows Video
        • How to install an Illumina Connected Analytics service connector on macOS Video
        • How to parse the Counts sparse matrix file output by the DRAGEN scRNA and scATAC pipelines
        • How to set up analysis for AmpliSeq for Illumina libraries with off instrument Local Run Manager 2
        • How to update the DRAGEN BIOS version to reduce v4 server fan noise
        • Information on BCL Convert software releases
        • Investigation of Log4j Vulnerability with Emedgene
        • Labeled components of a v1 sample sheet
        • Recommendation to abort ongoing DRAGEN analysis
        • Running DRAGEN analyses with ORA files as input
      • Troubleshooting
        • Cannot specify ' with failed reads' with cbcl input data." error in bcl2fastq2
        • Considerations when using DRAGEN TruSight Oncology 500 Solid v2.1 Sample Sheet
        • DRAGEN TSO500 ctDNA v2.1.1 install fails or breaks existing DRAGEN TSO500 installation
        • DRAGEN installation failed due to lack of disk space in root volume
        • DRAGEN license information and installation
        • Download links for DRAGEN Reference genome FASTA files
        • How to demultiplex an incomplete run using bcl2fastq2 and BCL Convert
        • How to troubleshoot barcode collision error when running bcl2fastq2
        • Instructions to back up DRAGEN license files when upgrading the operating system on a DRAGEN server
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  1. Instrumentation
  2. NovaSeq X/X Plus
  3. Reference Material

How to add custom index adapter and library prep kits to the NovaSeq X Series Instruments

The NovaSeq X/X Plus instruments have a built in Run Planning tool that allows for efficient and accurate sample index assignments during run setup. The following steps are used to add custom or third-party Library Prep and Index Adapter kits to the NovaSeq X/X Plus Control Software. These kits will then be available within the on-instrument Run Planning tool during run setup.

Download the Index Adapter Kit template file

The template file required to upload Custom Index Adapter kits is only available through the Remote NovaSeq X/X Plus Control Software interface. See the following steps to login to this interface and download the template file.

  1. Navigate to the NovaSeq X/ X Plus Illumina Run Manager interface.

    1. Open the Chromium web browser.

    2. Input localhost into the address bar and press Enter.

    3. If a safety warning presents, select Advanced and then select the link to proceed to localhost.

  2. Select Local Login and then input the username and password for any Sequencing Operating account.

  3. Select the dropdown menu in the top left corner, and then select Custom Kits.

  4. Select the Download Template link to download the template.tsv file.

Add the custom Index Adapter Kit

Note: index names can include only alphanumeric characters. No other characters are allowed.

  1. Open the template.tsv file using Microsoft Excel, Libre Office, or other similar spreadsheet editing software.

  2. Follow the instructions in the template.tsv file to add the following Index Adapter kit information:

    1. [IndexKit]— Overview information for the index adapter kit, including name, version, description, and index strategy.

    2. [Resources]— Allows for providing adapter sequences for Read 1 and Read 2. Based on the values in this section, the imported file sets the index kit type as one of the following options.

    3. Standard layout (non-fixed).

    4. Fixed layout (single plate).

    5. Fixed plate layout (multi plate).

    6. [Indices]— A list of indexes, including name, index sequence, and whether the index is for Index 1 or Index 2.

  3. Remove the template instructions included in the angle brackets (< >), and then save the TSV file.

  4. In the Illumina Run Manager user interface, select the dropdown menu in the top-left corner, then select Custom Kits.

  5. Select Import index adapter kit, then navigate to the custom index adapter kit (*.tsv) and select Open.

  6. After successfully importing the custom index adapter kit, select the Index Kit name to review and edit information.

  7. Note: NovaSeq X Series Control Software v1.3 includes checkbox in the custom Index Adapter Kit creation workflow to optionally skip index diversity validation

Add a custom Library Prep Kit

After adding the custom Index Adapter Kit, use the following instructions to upload custom Library Prep kit information.

  1. From the Custom Kits menu in the Illumina Run Manager user interface, select Add library prep kit and enter the following information.

    1. Library prep kit name.

    2. [Optional] Description.

    3. [Optional] Organization. The company or institution that owns the custom library prep kit. The organization cannot be Illumina.

    4. Allowed read types.

    5. Default read type.

    6. Default read cycle.

  2. From the drop-down list, select at least one compatible Index Adapter kit.

  • If a custom Index Adapter kit is used, make sure that it is added first using the steps listed above under 'Add the custom Index Adapter Kit'

  1. Select Save.

  2. After successfully adding the Library Prep kit, select the Library Prep kit name to review and edit information.

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