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Configuration

Select the type of dataset in use:

Instrument Settings

Enter the MS1 Accuracy of the Mass Spectrometer:

Enter the MS2 Accuracy of the Mass Spectrometer:

Quantification

Run Quantification? (only possible if RAW files have been uploaded).

Use NetMHCpan Binding affinity?

As a feature for assignment (best for mono-allelic immunopeptidome data):
In reporting after assignment (best for multi-allelic immunopeptidome data):



File Specific Information


Specify RAW File information.



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Additional Settings.


(Optional) Additional configurations (these are only required for specialised use cases see configuration options on our GitHub page). We suggest setting remapToProteome to True.



Config Key Config Setting









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