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Add blind spots from Modlin et al as region list for masking variants #2

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biominer opened this issue Feb 14, 2023 · 1 comment
Open

Add blind spots from Modlin et al as region list for masking variants #2

biominer opened this issue Feb 14, 2023 · 1 comment

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@biominer
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Add a BED file of the regions of systematic low coverage/poor mappability reported by Modlin et al
biominer added a commit to biominer/tb_variant_filter that referenced this issue Feb 15, 2023
@biominer
Add list of regions identified as illumina blind spots in www.ncbi.nl…
69b5f8e 
…m.nih.gov/pmc/articles/PMC8190613/ and add as filtering option in region_filter.py to partially address COMBAT-TBgh-2
@biominer biominer mentioned this issue Feb 15, 2023
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@biominer
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I believe a .py script like that written for the other as region lists may still need to be added to tb_variant_filter/src/tb_variant_filter/masks/.

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