Have you already run a search or do you want to run MSFragger within interact-ms?
Add contaminants (MaxQuant contaminants):
Advanced search configuration:
By default, the parameters used for the MSFragger search are set to use fixed carbamidomethylation
and variable oxidation. Enzyme will be set as either nonspecific or trypsin based on selection
at the configuration step. If you would like to change these parameters, please upload a parameter file,
otherwise, click proceed to continue. The default parameters file can be seen at:
interact-ms Github page (utilities folder).
Files uploading...
Please upload a file before proceeding.