Difference between revisions of "Ngs-bits"
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| − | + | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |
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==System Variables== | ==System Variables== | ||
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
Latest revision as of 16:57, 10 June 2022
Description
Short-read sequencing tools.
Main tools
- SeqPurge - A highly-sensitive adapter trimmer for paired-end short-read data (paper, poster from ECCB 2016 with more recent benchmarks).
- SampleCorrelation - Calculates the variant overlap and correlation of two VCF/BAM files.
- SampleGender - Determines sample gender based on a BAM file.
- PERsim - Paired-end read simulator for Illumina reads.
- CnvHunter - CNV detection from targeted resequencing data using non-matched control samples.
Environment Modules
Run module spider ngsbits to find out what environment modules are available for this application.
System Variables
- HPC_NGSBITS_DIR - installation directory