This is a test version of Biostars. For the public version, visit https://www.biostars.org.
hg38 low-quality site BED file

I am working on some human WGS data hg38 assembly. I was wondering: is there any BED format to exclude low-quality sites?

Thank you very much in advance!

human low-quality-site bed hg38
• 3,469 views • link
written by cocchi.e89 cocchi.e89

Are you referring to the mappability files?

• 0 views • link
written by GenoMax GenoMax

1 answer

the complement of wgs_calling_regions.hg38.interval_list under https://console.cloud.google.com/storage/browser/genomics-public-data/resources/broad/hg38/v0/ ?

• 0 views • link
written by Pierre Lindenbaum Pierre Lindenbaum

What are these regions exactly?

• 0 views • link
written by cocchi.e89 cocchi.e89

Thus, these are the intervals to include (not intervals to exclude). Right? Did I understand correctly?

• 0 views • link
written by cocchi.e89 cocchi.e89

That is why @Pierre said

the complement of wgs_calling_regions.hg38.interval_list

• 0 views • link
written by GenoMax GenoMax

Log in to answer this question.

More posts like this