A standardized Nextflow workflow for processing DDA mass spectrometry data was used to process the DDA QC runs from a Thermo Orbitrap Fusion (2014-2016).

• The source code for the Nextflow workflow can be found at: github.com/mriffle/nf-teirex-dda
• Documentation to set-up the Nextflow workflow can be found at: nf-teirex-dda.readthedocs.io/
• The Limelight Project (ID 131) containing the searched DDA MS runs is available at: limelight.yeastrc.org/limelight/d/pg/project/131