> 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/software/general/software-general-troubleshooting-list.md).

# Troubleshooting

Software > General > Troubleshooting

* [DRAGEN reference differences for on instrument and standalone analysis](/software/general/software-general-troubleshooting-list/000009589.md)
* [Does the DRAGEN pipeline support VQSR (Variant Quality Score Recalibration)?](/software/general/software-general-troubleshooting-list/000006139.md)
* [How to troubleshoot a "None of the specified endpoints were reachable" error in Local Run Manager](/software/general/software-general-troubleshooting-list/000001217.md)
* [Illumina Connected Analytics (ICA) kernel cannot connect in a Bench Workspaces](/software/general/software-general-troubleshooting-list/000007769.md)
* [Options for demultiplexing libraries with different index lengths in the same sequencing run](/software/general/software-general-troubleshooting-list/000005982.md)
* [Sample specific nucleotide error bias estimation filter and systematic noise filter in DRAGEN](/software/general/software-general-troubleshooting-list/000006989.md)
* [Troubleshooting LRM analysis module not available at run start on NextSeq 500/550](/software/general/software-general-troubleshooting-list/000001904.md)


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