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openvax / topiary

Predict mutated T-cell epitopes from sequencing data
Apache License 2.0
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output Core from netmhciipan #36

Open kippakers opened 9 years ago

kippakers commented 9 years ago

Class II predictions have a lot of redundancy in the peptides they spit out which can be reduced by looking at the Core sequence. Currently topiary doesn't output the Core of a peptide (to match the classI output), but I think it's necessary for class II.

Would adding an extra column to the output csv be detrimental to downstream stuff?

iskandr commented 9 years ago

Sorry for the long delay in thinking about this. I can pass along the binding core, though it might clutter the downstream slightly. Do you still need this?

kippakers commented 9 years ago

I think it's important, but maybe to keep clutter down for other users it's best to use a flag to turn this on.