Software Manual for Sentieon® Genomics pipeline tools¶
Sentieon® develops and supplies a suite of bioinformatics secondary analysis tools that process genomics data with high computing efficiency, fast turnaround time, exceptional accuracy, and 100% consistency.
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Sentieon Manual
- 1. Introduction
- 2. Typical usage for DNAseq®
- 3. Typical usage for DNAscope
- 4. Typical usage for TNseq®
- 5. Typical usage for TNscope®
- 6. Typical usage for RNA variant calling
- 7. Detailed usage of the tools
- 8. Examples of tool capabilities and applications
- 8.1. DNA pipeline example script
- 8.2. Working with multiple input files
- 8.3. Supported annotations in Haplotyper and Genotyper
- 8.4. Removing reads after alignment with low mapping quality
- 8.5. Performing Dedup to mark primary and non-primary reads
- 8.6. Pipeline modifications when using data with quantized quality scores
- 8.7. Modify RG information on BAM files when both Tumor and Normal inputs have the same RGID
- 8.8. Running the license server (LICSRVR) as a system service
Appendix