SAM
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Dan Tobias (Talk | contribs) (Created page with "{{FormatInfo |formattype=electronic |subcat=Scientific Data formats }} '''SAM''' (Sequence Alignment/Map) is a data format used for mapping sequences of DNA. It is in text (ta...") |
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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]] 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]]. |
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| + | Indexes associated with a SAM file are called SAI. | ||
== Identification == | == Identification == | ||
Latest revision as of 03:51, 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.
Indexes associated with a SAM file are called SAI.
[edit] 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.
