Provide option to customize binder threshold

Currently the affinity threshold for a peptide prediction is set to >= 50% to decide whether a peptide is considered as a binder or not. It would be convenient to customize the threshold for each given prediction tool.

Hi @jonasscheid, thanks for feature request, makes totally sense. The place where we would have to change this is here (for Syfpeithi and others):

epitopeprediction/bin/epaa.py

Line 735 in ce15e44

return True if aff > 50.0 else False

In addition we will need a new pipeline parameter that can be forwarded to the Python script call here:

epitopeprediction/main.nf

Line 432 in ce15e44

epaa.py ${input_type} --identifier ${inputs.baseName} \