Variant Calling

samtoolsC

A suite of command-line tools for manipulating SAM, BAM, and CRAM files in next-generation sequencing data analysis.

BcbioPython

A validated, scalable, community-developed pipeline for variant calling, RNA-seq, and small RNA analysis in genomic sequencing.

VcflibC++

A C++ library and command-line toolkit for parsing, manipulating, and analyzing VCF (Variant Call Format) files in bioinformatics.

WhamC++

A suite of tools (wham and whamg) for sensitive and accurate structural variant detection and association testing from genomic sequencing data.