manipulate SAM cigar strings


Cigar is a simple Python3 library for dealing with cigar strings. the most useful feature now is soft-masking from left or right. This allows one to adjust a SAM record only by changing the cigar string to soft-mask a number of bases such that the rest of the SAM record (pos, tlen, etc.) remain valid, but downstream tools will not consider the soft-masked bases in further analysis.

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Install this software package

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Install python3-cigar