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IEDB / TCRMatch

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support for AIRR TSV input #26

Closed schristley closed 2 years ago

schristley commented 3 years ago

It looks like with the rewrite that AIRR TSV support was lost. I think it should be easy add back, just need to parse the TSV and extract the junction_aa column, or maybe cdr3_aa because tcrmatch does not want the conserved residues. I suppose the only issue there is cdr3_aa is an optional field in AIRR TSV while junction_aa is required, so may be better to use junction_aa and trim.

I will try to submit a PR.

acrinklaw commented 3 years ago

Hey @schristley, I apologize for the oversight. I started a new job and it's been quite a while since I've been actively working on TCRMatch and I just got back to it - I didn't mean to forget our VDJ friends :-)

Your PR looks fantastic and I'll go ahead and merge it after I get a chance to make sure nothing looks strange when I run it on my end - thanks for the help.