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The Sequence Alignment/Map format and SAMtools
H. Li ,
B. Handsaker ,
A. Wysoker ,
T. Fennell ,
J. Ruan ,
N. Homer ,
G. Marth ,
G. Abecasis ,
R. Durbin ,
1000 Genome Project Data Processing Subgroup
August 07 2009
June 08 2009
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Abstract
Summary: The Sequence Alignment/Map (SAM) format is a generic alignment format for
storing read alignments against reference sequences, supporting short and long reads
(up to 128 Mbp) produced by different sequencing platforms. It is flexible in style,
compact in size, efficient in random access and is the format in which alignments
from the 1000 Genomes Project are released. SAMtools implements various utilities
for post-processing alignments in the SAM format, such as indexing, variant caller
and alignment viewer, and thus provides universal tools for processing read alignments.
Availability: http://samtools.sourceforge.net
Contact: rd@sanger.ac.uk