On 02/13/2014 08:09 AM, Sean Davis wrote:
Hi, Martin.
How difficult would it be to include insertions/deletions in seq and qual
in the applyPileups method for PileupFiles? The use case is to look at the
context around variants for increases mismatch rates. Indels will have a
small impact on such calculations, but for completeness it would be nice to
have.
Actually we're in the process of revisiting how pileups are calculated, so it's
a great time to express what you'd like. Are you asking for per-position
information on indel occurrence? Martin
Thanks,
Sean
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