HTSlib
github.com/samtools/htslibThe main purpose of HTSlib is to provide access to genomic information files, both alignment data (SAM, BAM, and CRAM formats) and variant data (VCF and BCF formats). The library also provides interfaces to access and index genome reference data in FASTA format and tab-delimited files with genomic coordinates. It is utilized and incorporated into both SAMtools and BCFtools.
Sourced from
- bio.tools — htslib
- GitHub — github.com/samtools/htslib
Related resources
Python wrapper for [samtools](https://github.com/samtools/samtools).
Cython + HTSlib == fast VCF parsing; even faster parsing than pyVCF.
Syntax Highlighting for Computational Biology file formats (SAM, VCF, GTF, FASTA, PDB, etc...) in vim/less/gedit/sublime.
Deep learning-based variant caller
Annotate a VCF with other VCFs/BEDs/tabixed files.