labelfree_with_protein_quantification

Identification with X!Tandem in the ID meta node, Protein Inference with Fido and protein quantification based on feature intensities with ProteinQuantifier.
Input mzML spectra files are specified in the Input Files node.
The target protein database is specified in the Input File node within the ID meta node.
Outputs are multiple boxplots that can be opened by right click -> View Boxplot on the blue Boxplot nodes.

Example input data:
Download
Labelfree with Protein Quantification (Input Data)
available in the same KNIME Hub space as thos workflow.
Put the folder in your KNIME Workspace in the same directory as the workflow itself.

External resources

• Example Data
• Home of the OpenMS plugin