Filtering R1_bestguess_G.txt based on average coverage

nanjalaruth / hla_typing_using_HLA-LA

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Filtering R1_bestguess_G.txt based on average coverage #2

Open karpat90 opened 1 year ago

karpat90 commented 1 year ago

Hello!

Thank you for publishing a great pipeline. I wanted to ask if you would recommend filtering R1_bestguess_G.txt file based on AverageCoverage column and excluding low-quality loci?

Thank you for your help.

nanjalaruth commented 1 year ago

Hi @karpat90 I used the R1_bestguess_G.txt file as it was. However, you could filter as required to improve typing quality.