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idpQonvert (version 3.0.21142.0)
The FASTA protein database to map peptides against. Only peptides from target proteins will be mapped; decoy peptides will be stored as-is in the idpDB.
The prefix to look for on protein accessions to determine whether it is a target or decoy.
PSMs with a greater FDR than this will be excluded from the filtered data set, but remain in the file.
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What it does

Creates IDPicker 3 idpDB files from pepXML and mzIdentML files. The input files should be unfiltered and must come from a target/decoy database search.