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Diffstat (limited to 'academic/samtools/README')
| -rw-r--r-- | academic/samtools/README | 22 |
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diff --git a/academic/samtools/README b/academic/samtools/README new file mode 100644 index 0000000000000..0203586f94268 --- /dev/null +++ b/academic/samtools/README @@ -0,0 +1,22 @@ +SAM (Sequence Alignment/Map) format is a generic format for storing +large nucleotide sequence alignments. SAM aims to be a format that: + +- Is flexible enough to store all the alignment information generated + by various alignment programs +- Is simple enough to be easily generated by alignment programs or + converted from existing alignment formats +- Is compact in file size +- Allows most of operations on the alignment to work on a stream + without loading the whole alignment into memory +- Allows the file to be indexed by genomic position to efficiently + retrieve all reads aligning to a locus. + +SAM Tools provide various utilities for manipulating alignments in the +SAM format, including sorting, merging, indexing and generating +alignments in a per-position format. + +Publication: +Li H.*, Handsaker B.*, Wysoker A., Fennell T., Ruan J., Homer N., +Marth G., Abecasis G., Durbin R. and 1000 Genome Project Data +Processing Subgroup (2009) The Sequence alignment/map (SAM) format and +SAMtools. Bioinformatics, 25, 2078-9. [PMID: 19505943] |