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consider unmapped mates when BED only flag is set #69

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sb43 opened this issue Jan 11, 2021 · 0 comments
Open

consider unmapped mates when BED only flag is set #69

sb43 opened this issue Jan 11, 2021 · 0 comments

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@sb43
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sb43 commented Jan 11, 2021

Currently vafcorrect only considers unmapped reads within a window of variant location when analysing 'PASS' variant locations.
Improve either by setting FILTER as PASS for bed intervals at following line.

$data_for_all_samples->{$sample}{$location_key}={'INFO'=>undef,'FILTER'=>'NA','RD'=>1 };

@sb43 sb43 changed the title consider unmapped mates when analysing BED only falg is set consider unmapped mates when BED only flag is set Jan 11, 2021
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