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16 lines
936 B
Text
16 lines
936 B
Text
SAM (Sequence Alignment/Map) format is a generic format for storing large
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nucleotide sequence alignments. The original samtools package has been split
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into three separate but tightly coordinated projects: htslib (C library for
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handling high-throughput sequencing data), samtools (for handling SAM, BAM,
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CRAM), and bcftools (for handling VCF and BCF).
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Samtools is now distributed as an individual package. Installation is set up
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so that the code uses an external HTSlib (also at SBo). Although deprecated
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upstream, in the case that people need parts of samtools-legacy (e.g header
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files or libbam) these can be installed from this package by modifying the
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samtools.Slackbuild. Note that the sam.h of htslib differs from sam.h coming
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with samtools.
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Prior to the introduction of HTSlib, SAMtools and BCFtools were distributed
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in a single samtools-0.1.x package. This old version remains available from
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SBo as samtools-legacy.
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