Filter by FDR

Description

Filter peptide-spectral matches resulting from a target-decoy search at a certain target false discovery rate.

Input files

• at least 1 OMSSA results file (.csv)

Output files

• Filtered results (filtered-by-fdr.csv)

Context

Parameters

FDR calculation

Choices: 2 * decoys / (decoys + targets)) (default), decoys / targets

Target FDR

Default: 1.0 %

Score threshold scope

Choices: global (default), per band

Be strict about target FDR

Be strict about the target FDR.

Default: true

Tweaks

Target entry prefix

Default: __td__target_

Decoy entry prefix

Default: __td__decoy_

Amount of decoys per target

Specify how many decoys have been generated for every target.

Default: 1

Source code

filter-psm-by-fpr.rb, filter-psm-by-fpr.yaml (GitHub)