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Update general structure of MHCbinding subworkflow #205

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alina-bauer opened this issue Aug 15, 2023 · 0 comments
Open
4 tasks

Update general structure of MHCbinding subworkflow #205

alina-bauer opened this issue Aug 15, 2023 · 0 comments
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enhancement New feature or request

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@alina-bauer
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alina-bauer commented Aug 15, 2023 •
edited by jonasscheid
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It should be a subworkflow that replaces the function make_predictions_from_peptides in epaa.py.
That subworkflow takes as input a tsv file containing a column sequence (and additional metadata). Depending on the tools specified by the user one or more predictors can be used.
First there will be a general structure that can be executed with the -stub parameter without any functionality.

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  1. Add mhcnuggets module #214
    enhancement
  2. Add mhcflurry module #215
    enhancement
  3. Add netmhc(ii)pan module #216
    enhancement
  4. Add syfpeithi module #217
    enhancement
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@jonasscheid @alina-bauer