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Is your feature request related to a problem? Please describe.
Currently, oktoberfest stops at rescoring. It would be nice to have pickedGroupFDR for quantification.
Also, pickedGroupFDR should write back the output in the same format as MaxQuant, MSFragger and Sage, the currently supported search engines in oktoberfest.
Describe the solution you would like
Make quantification an additional boolean flag in the config that starts pickedGroupFDR based quant
Make reformat an additional boolean flag in the config that writes output back in search engine specific format
add additional key to input dict in config for additional file input from search engine containing quant information
alternatively, make quantification an additional job in the high level API. Does this make sense? Since pickedGroupFDR could be run without rescoring maybe or does it always need rescoring prior to quant?
Additional context
The text was updated successfully, but these errors were encountered:
Is your feature request related to a problem? Please describe.
Currently, oktoberfest stops at rescoring. It would be nice to have pickedGroupFDR for quantification.
Also, pickedGroupFDR should write back the output in the same format as MaxQuant, MSFragger and Sage, the currently supported search engines in oktoberfest.
Describe the solution you would like
Make quantification an additional boolean flag in the config that starts pickedGroupFDR based quant
Make reformat an additional boolean flag in the config that writes output back in search engine specific format
add additional key to input dict in config for additional file input from search engine containing quant information
alternatively, make quantification an additional job in the high level API. Does this make sense? Since pickedGroupFDR could be run without rescoring maybe or does it always need rescoring prior to quant?
Additional context
The text was updated successfully, but these errors were encountered: