minimap2 cigar entry
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4.8 years ago
zinderelly • 0

Hi all,

I'd like to understand the CIGAR entry for minimap2 alignments. The numbers of cigar entries for a given read seems to not line up with the sequence...

Does anyone have an explanation of CIGAR entry for minimap2?

Thanks
sequencing genome alignment • 2.5k views
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This is for nanopore long read alignments.

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Please add details (=data examples). Words alone often do not suffice.

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The minimap2 CIGAR structure is not special, it follows the SAM specifications.

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Page 8 of the Sequence Alignment/Map Format Specification

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