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Jump to navigationJump to searchCigarRoller Proposed Update (view source)
Revision as of 11:11, 4 August 2010
, 11:11, 4 August 2010no edit summary
| <code>void CigarRoller::Add(const char *cigarString)</code>
| <code>void CigarRoller::Add(const char *cigarString)</code>
| <code>void Cigar::add(const char *cigarString)</code>
| <code>void Cigar::add(const char *cigarString)</code>
| What happens if an invalid character is found while parsing this???
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When SamRecord needs to convert from SAM to BAM or BAM to SAM or needs alignment length or numOverlaps,e tc, it would use the appropriate Cigar::set.
When SamRecord needs to convert from SAM to BAM or BAM to SAM or needs alignment length or numOverlaps,e tc, it would use the appropriate Cigar::set.
The conversion logic and parsing logic SAM & BAM would only be located in this Cigar class.
The conversion logic and parsing logic SAM & BAM would only be located in this Cigar class.
The alignment length calculation would come from the cigar.
What about alignment end (pass in the start position)?
Unclipped Start/End would also be from Cigar - or would it just be offsets - or either depending on whether or not the start pos is passed in.
