These procedures describe how to create specific types of workflows.
- Creating Reporter Ion Quantification Workflows
- Creating Precursor Ion Quantification Workflows
- Creating Label-Free Workflows
- Creating INFERYS Rescoring Workflows
- Creating CHIMERYS Workflows
- Adding PTM Analysis to a Workflow
- Supporting Analyses of Datasets with Multiple Fragmentation Methods
- Including Precursor Detector node
- Including Spectra Export in a Workflow
- Adding Columns for Marking Proteins in Results
- Incorporating Mass Recalibration
- Searching for Quantification Modifications with Mascot
- Performing TMT Quantification on HCD and CID Scans
- Creating a Multiconsensus Report
- Searching Spectrum Libraries
- Filtering Results in a Workflow
- Calculating FDRs
- Assigning Confidence to PSMs in Large Data Sets
- Assigning Confidence to PSMs in Smaller Data Sets
- Assigning Confidence to Proteins
- Filtering PSMs with the Fixed Value PSM Validator Node
- Filtering PSMs with the Peptide and Protein Filter Node
- Filtering Proteins
- Filtering PSMs with MSF Node Parameters
- Adding Protein Annotation to a Workflow
- Displaying Species Names for Proteins and Peptide Groups
- Post-Processing Workflows