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ukhsa-collaboration / snapperdb

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rec_file option #15

Closed ConstantinV closed 6 years ago

ConstantinV commented 6 years ago

Hello, I saw a rec_file option in run_snapperdb.py get_the_snps command. I suppose this file with regions where SNPs can be excluded. If yes, could you describe the format of the file in details?

Thank you!

timdallman commented 6 years ago

Hi. The '-n' option in get_the_snps expects a file with tab separated regions to ignore in the format: chromosome/contigstart posend pos e.g. gi|15829254|ref|NC_002695.1 50 500 gi|15829254|ref|NC_002695.1 1250 1700 .....

ConstantinV commented 6 years ago

Thank you a lot!