WF5_Data_Interpretation_Worklow
1.0

Workflow Type: Galaxy

Interpreting MaxQuant data using MSstats involves applying a rigorous statistical framework to glean meaningful insights from quantitative proteomic datasets

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 5: Data Interpretation, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, Katherine Do, Dechen Bhuming

Tutorial Contributor(s): Pratik Jagtap, Timothy J. Griffin, Bérénice Batut, Helena Rasche, Saskia Hiltemann, Björn Grüning, Subina Mehta

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
Annotation.txt Annotation.txt n/a
  • File
Comparison Matrix Comparison Matrix n/a
  • File
MaxQuant Evidence MaxQuant Evidence n/a
  • File
MaxQuant Protein Groups MaxQuant Protein Groups n/a
  • File
Quantified Peptides Quantified Peptides n/a
  • File

Steps

ID Name Description
5 Unipept toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/4.5.1
6 Microbial Proteins Grep1
7 Select Grep1
8 MSstatsTMT toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/2.0.0+galaxy1
9 HUMAN-Proteins Grep1
10 MSstatsTMT toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/2.0.0+galaxy1

Version History

1.0 (earliest) Created 2nd Jun 2025 at 10:53 by GTN Bot

Added/updated 4 files


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Created: 2nd Jun 2025 at 10:53

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