Software Manual for Sentieon Genomics pipeline toolsΒΆ
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. Latest release notes and usage changes
- 3. Typical usage for DNA seq
- 4. Typical usage for DNA scope
- 5. Typical usage for TN seq
- 6. Typical usage for TN scope
- 7. Typical usage for RNA variant calling
- 8. Detailed usage of the tools
- 9. Examples of tool capabilities and applications
- 9.1. DNA pipeline example script
- 9.2. Working with multiple input files
- 9.3. Supported annotations in Haplotyper and Genotyper
- 9.4. Running the license server (LICSRVR) as a system service
- 9.5. Removing reads after alignment with low mapping quality
- 9.6. Performing Dedup to mark primary and non-primary reads
- 9.7. Pipeline modifications when using data with quantized quality scores
- 9.8. Modify RG information on BAM files when both Tumor and Normal inputs have the same RGID
Appendix