> For the complete documentation index, see [llms.txt](https://knowledge.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://knowledge.illumina.com/microarray/general/microarray-general-troubleshooting-list.md).

# Troubleshooting

Microarray > General > Troubleshooting

* [BlueFuse Multi: How to re center Log R Ratio (LRR) line](/microarray/general/microarray-general-troubleshooting-list/000003859.md)
* [Create a batch file for simple BeadChip accessioning to Illumina Microarray Analytics PGx Analysis](/microarray/general/microarray-general-troubleshooting-list/000005887.md)
* [GenomeStudio Methylation Module why are some beta values blank even though there are intensities reported for them?](/microarray/general/microarray-general-troubleshooting-list/000003003.md)
* [How to Determine the Sex of Samples in a GenomeStudio Methylation Project](/microarray/general/microarray-general-troubleshooting-list/000008918.md)
* [How to configure the NextSeq 550 for BeadArray Scanning](/microarray/general/microarray-general-troubleshooting-list/000005236.md)
* [How to create region not called by the algorithm for BeadArray data in BlueFuse Multi](/microarray/general/microarray-general-troubleshooting-list/000005044.md)
* [How to identify which Manifest and Cluster Files were used to generate a GTC File](/microarray/general/microarray-general-troubleshooting-list/000001484.md)
* [How to include only selected SNPs when exporting a Final Report in GenomeStudio 2.0](/microarray/general/microarray-general-troubleshooting-list/000005451.md)
* [How to interpret the Controls Dashboard for Genotyping projects in GenomeStudio](/microarray/general/microarray-general-troubleshooting-list/000002747.md)
* [How to mark regions as "Not Reported" in BlueFuse Multi](/microarray/general/microarray-general-troubleshooting-list/000005042.md)
* [How to recoat Infinium BeadChip with XC4](/microarray/general/microarray-general-troubleshooting-list/000003735.md)
* [How to troubleshoot the GenomeStudio error "Index was outside the bounds of the array."](/microarray/general/microarray-general-troubleshooting-list/000001901.md)
* [Infinium Assay Hybridization and XStain Troubleshooting Guide](/microarray/general/microarray-general-troubleshooting-list/000005025.md)
* [Precipitation and Resuspension Troubleshooting Guide in Infinium Assay](/microarray/general/microarray-general-troubleshooting-list/000003842.md)
* [Single sample group formation to reduce GenomeStudio Methylation Module crashing during analysis](/microarray/general/microarray-general-troubleshooting-list/000001887.md)
* [Switching between AutoLoader Mode and Manual Mode when using iScan](/microarray/general/microarray-general-troubleshooting-list/000005545.md)
* [Troubleshooting "Error in reading file Normalization Transformation incorrect version" in Array ACLI](/microarray/general/microarray-general-troubleshooting-list/000007824.md)
* [Troubleshooting "Unknown cluster statistics version" error in GenomeStudio 2011.1](/microarray/general/microarray-general-troubleshooting-list/000002697.md)
* [Troubleshooting BeadArray Controls Reporter (BACR) Error: "Could not launch selected viewing application"](/microarray/general/microarray-general-troubleshooting-list/000006513.md)
* [Troubleshooting DRAGEN Array Cloud error Sample sheet missing required columns](/microarray/general/microarray-general-troubleshooting-list/000010004.md)
* [Troubleshooting GenomeStudio "Error writing data beyond end of sample"](/microarray/general/microarray-general-troubleshooting-list/000003031.md)
* [Troubleshooting the Infinium HD FFPE QC Assay Protocol](/microarray/general/microarray-general-troubleshooting-list/000007905.md)
* [What are the ch probes in the MethylationEPIC Array manifest?](/microarray/general/microarray-general-troubleshooting-list/000005501.md)
* [What is the correct format for DRAGEN Array IDAT CSV Sample Sheet?](/microarray/general/microarray-general-troubleshooting-list/000006290.md)


---

# Agent Instructions
This documentation is published with GitBook. GitBook is the documentation platform designed so that both humans and AI agents can read, navigate, and reason over technical content effectively. Learn more at gitbook.com.

## Querying This Documentation
If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question.

Perform an HTTP GET request on the current page URL with the `ask` query parameter, and the optional `goal` query parameter:

```
GET https://knowledge.illumina.com/microarray/general/microarray-general-troubleshooting-list.md?ask=<question>&goal=<endgoal>
```

`ask` is the immediate question: it should be specific, self-contained, and written in natural language.
`goal` is optional and describes the broader end goal you are ultimately trying to accomplish on behalf of the user. GitBook uses it to tailor the answer towards what is most useful for that goal.

The response will contain a direct answer to the question and relevant excerpts and sources from the documentation.

Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.