The ProteoGenomics database generation workflow creates different protein databases for ProteoGenomics data analysis.
Add ENSEMBL canonical proteomes
Non canonical proteins generation parameters
Proteins generated using an input VCF
cBioportal variant parameters
COSMIC variant proteins parameters
Generate decoy proteins and attach them to the final protein database
Clean and process the resulted database
Define where the pipeline should find input data and save output data.
Less common options for the pipeline, typically set in a config file.
Set the top limit for requested resources for any single job.
Parameters used to describe centralised config profiles. These should not be edited.