Identification_quantification_with_inference_isobaric

## Description
OpenMS exam workflow for the analysis of isobaric data (e.g. TMT).

A) Quantification via the IsobaricAnalzyer
B) Score estimation and filtering (PSM level)
C) Database search and annotation (target-decoy)
D) Merging of the results
E) Score estimation and protein inference (epifany)
F) Peptide level results
G) Protein level results
H) MSstatsTMT output (peptide level - experimental)

## Input
1) Input files (isobaric labeled peptides (e.g. TMT) as centroided mzML files.
2) Decoy database (.fasta)
3) Experimental Design (.tsv) for MSstatsTMT

## Output
1) MSstatsTMT readble format (.tsv)
2) Peptide level information (.mztab)
3) Protein level information (.csv/mztab)

Example input data:
To download the data from the archive, check the box on the folder and click on the download button (arrow) on the top left.
Download and unpack the "isobaric_additional_example_set_Plubell_2017" data into a directory "Example_data/isobaric_additional_example_set_Plubell_2017" next to this workflow inside your KNIME workspace.

External resources

• Example Data
• Home of the OpenMS plugin