SAM
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'''SAM''' (Sequence Alignment/Map) is a data format used for mapping sequences of DNA. It is in text (tab-separated) form, while A companion format [[BAM (Binary Alignment Map)|BAM]] is binary. It is classified as an alignment format, as is [[CRAM]]. This is as opposed to sequence-only, unaligned, formats such as [[FASTA and FASTQ]]. | '''SAM''' (Sequence Alignment/Map) is a data format used for mapping sequences of DNA. It is in text (tab-separated) form, while A companion format [[BAM (Binary Alignment Map)|BAM]] is binary. It is classified as an alignment format, as is [[CRAM]]. This is as opposed to sequence-only, unaligned, formats such as [[FASTA and FASTQ]]. | ||
Revision as of 03:50, 4 August 2020
SAM (Sequence Alignment/Map) is a data format used for mapping sequences of DNA. It is in text (tab-separated) form, while A companion format BAM is binary. It is classified as an alignment format, as is CRAM. This is as opposed to sequence-only, unaligned, formats such as FASTA and FASTQ.
Identification
Files will often start with a header line (though this is technically optional), such as @HD VN:1.6 SO:coordinate, where the VN parameter gives the version number of the format and this may be followed with a SO or G0 parameter giving sorting order or grouping of alignments.
