NovaSeq 6000 API-based v3.2.1

Compatibility

• BaseSpace Clarity LIMS v4.2 or later. Not compatible with v6.0 and later.

• NGS Extensions Package v5.18 or later.

• Pre-configured Workflow Package (PCWP) v1.2 or later.

Illumina NovaSeq Software Compatibility

• NovaSeq Control Software (NVCS) v1.6.0.

Features to Note for this Release

This release of the BaseSpace Clarity LIMS integration package provides:

• API-based integration between NovaSeq instrument and BaseSpace Clarity LIMS.

• Support for asymmetric sequencing read length.

• Support for the newly launched SPrime (SP) flowcell.

• Support for long read sequencing (2x250) on SPrime (SP) flowcell.

• Updated workflow (NovaSeq 6000 v3.0) delivered directly from PCWP v1.2

• Direct file and information exchange between Clarity LIMS and NovaSeq Control Software (NVCS) via API includes the following:

  • From LIMS to NVCS:

    • Sample sheet generated on LIMS to NVCS

    • Run recipe generated on LIMS to NVCS

  • From NVCS to LIMS:

    • Run status updates (RunStarted, RunCompletedSuccessfully, RunEndedByUser, RunErroredOut) from NVCS to LIMS

    • Run metrics information from NVCS to LIMS

Known issues

• In the run metrics payload that NVCS v1.6.0 sends to Clarity LIMS:

  • ReadsPF information is currently not available. (This will be fixed in the upcoming NVCS release.)

  • R2 error rate, R2 Q30, and R2 yield have slight inconsistency compared to values on Illumina Sequencing Analysis Viewer (SAV) software.