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Frequency for G correction #127

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gzentner opened this issue Jan 25, 2021 · 0 comments
Open

Frequency for G correction #127

gzentner opened this issue Jan 25, 2021 · 0 comments
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documentation Improvements or additions to documentation enhancement New feature or request

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@gzentner
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As it stands now, I believe the frequency of G removal is calculated by rbinom using the frequency of reads with a soft-clipped G in all reads, if the +1 base is a G and there are no soft-clipped bases in a given read. Wouldn't an unencoded G be soft-clipped? I guess I'm just wondering why a read should have no soft-clipped bases to be considered for correction.

Relatedly, I think the frequency used for the binomial deviation should take into account the number of reads with a non-soft-clipped G at +1.
@gzentner gzentner added documentation Improvements or additions to documentation enhancement New feature or request labels Jan 25, 2021
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