swMATH ID: 14583
Software Authors: Li H., Handsaker B., Wysoker A., Fennell T., Ruan J., Homer N., Marth G., Abecasis G., Durbin R
Description: Samtools is a suite of programs for interacting with high-throughput sequencing data. It consists of three separate repositories: Samtools: Reading/writing/editing/indexing/viewing SAM/BAM/CRAM format. BCFtools: Reading/writing BCF2/VCF/gVCF files and calling/filtering summarising SNP and short indel sequence variants. HTSlib: A C library for reading/writing high-throughput sequencing data. Samtools and BCFtools both use HTSlib internally, but these source packages contain their own copies of htslib so they can be built independently.
Homepage: http://www.htslib.org/
Related Software: BWA; Soap; GATK; R; VarScan; BLAT; MAFFT; Trimmomatic; FastQC; STAR; BEDTools; PAML; Bowtie 2; PatternHunter; Velvet; FASTX; UniProt; SnpEff; HTSeq; GOstat
Cited in: 16 Publications

Citations by Year