Most analysis modules prompt you to select a library prep kit when creating a run in Local Run Manager. You can create a custom library prep kit definition for use with an analysis module using tools on the Local Run Manager dashboard. See the Local Run Manager Software Guide and example kit definition files.
The Amplicon analysis module aligns reads against the reference specified in the manifest file, and then performs variant analysis.
| Library Kit Category | Library Kit Name |
|---|---|
| AmpliSeq for Illumina | AmpliSeq for Illumina Comprehensive Cancer Panel AmpliSeq for Illumina Cancer HotSpot Panel v2 AmpliSeq for Illumina Focus Panel AmpliSeq for Illumina Comprehensive Panel v3 AmpliSeq for Illumina BRCA Panel AmpliSeq for Illumina Immune Response Panel AmpliSeq for Illumina Exome Panel |
| TruSeq Amplicon | |
| TruSight Amplicon Panels | TruSight Myeloid Panel |
The DNA Enrichment analysis module aligns reads against the whole genome reference, and then performs variant analysis for regions of interest specified in the manifest file.
| Library Kit Category | Library Kit Name |
|---|---|
| Nextera Rapid Capture Enrichment | Nextera Rapid Capture |
| TruSight Enrichment Panels | TruSight Rapid Capture, including:
|
The Generate FASTQ analysis module demultiplexes indexed reads, generates intermediate analysis files in the FASTQ file format, and then exits the workflow. FASTQ files are input for third-party analysis tools.
| Library Kit Category | Library Kit Name |
|---|---|
| TruSeq Amplicon | |
| TruSight Amplicon Panels | TruSight Myeloid Panel |
| Nextera | Nextera DNA |
| Nextera Mate Pair | Nextera Mate Pair |
| Nextera XT V2 | Nextera XT with Index Kits v2 |
| Nextera XT | Nextera XT |
| TruSeq HT | |
| TruSeq LT | |
| Nextera Rapid Capture Enrichment | Nextera Rapid Capture |
| TruSight Enrichment Panels |
TruSight Rapid Capture, including:
|
| TruSeq Small RNA | TruSeq Small RNA |
The RNA Amplicon analysis module aligns reads specified in the manifest file, quantifies the relative expression of genes and isoforms between samples, and then compares abundance across samples.
| Library Kit Category | Library Kit Name |
|---|---|
| AmpliSeq for Illumina | AmpliSeq for Illumina AmpliSeq for Illumina Focus Panel AmpliSeq for Illumina Comprehensive Panel v3 |
The TruSight Tumor 15 analysis module aligns reads specified in the manifest file, and then reports somatic variants of a set of reference panel genes associated with cancer.
By default, the analysis module is set to TruSight Tumor 15 libraries.
The VeriSeq PGS analysis module demultiplexes and aligns reads to the human reference genome. BAM files are generated for use with BlueFuse™ Multi Analysis Software.
By default, the analysis module is set to VeriSeq PGS libraries.