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Mask selected regions in MILRAA #18

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kbseah opened this issue Oct 29, 2020 · 0 comments
Open

Mask selected regions in MILRAA #18

kbseah opened this issue Oct 29, 2020 · 0 comments

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@kbseah
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kbseah commented Oct 29, 2020

Add user option to define regions that are to be skipped in initial MILRAA step. For example with GFF file of low complexity regions, telomere regions, because these tend to attract poor quality mappings.

Alternative is to filter the MILRAA GFF output afterwards with a mask definition file.
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