clinicalmp-data-interpretation/main
v0.1

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Workflow Type: Galaxy

This workflow will perform taxonomic and functional annotations using Unipept and statistical analysis using MSstatsTMT.

SEEK ID: https://workflowhub.eu/workflows/1219?version=1

Inputs

ID Name Description Type
Annotation Annotation Annotation file for MSstatsTMT
  • File
Comparison Matrix Comparison Matrix Comparison matrix for MSstatsTMT
  • File
MaxQuant Evidence MaxQuant Evidence Evidence file from MaxQuant
  • File
MaxQuant Protein Groups MaxQuant Protein Groups MaxQuant Protein Groups
  • File
Quantified Peptides Quantified Peptides Quantified peptides from MaxQuant
  • 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_for_microbial_proteins MSstatsTMT analysis for microbial proteins toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/2.0.0+galaxy1
9 Human Proteins Grep1
10 MSstatsTMT_for_human_proteins MSstatsTMT analysis for human proteins toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/2.0.0+galaxy1

Outputs

ID Name Description Type
Microbial InterPro Outputs Microbial InterPro Outputs n/a
  • File
Microbial Taxonomy Tree Microbial Taxonomy Tree n/a
  • File
Microbial EC Proteins Tree Microbial EC Proteins Tree n/a
  • File
Microbial EC Terms Output Microbial EC Terms Output n/a
  • File
Microbial GO Terms Output Microbial GO Terms Output n/a
  • File
Unipept peptinfo Unipept peptinfo n/a
  • File
Microbial Proteins Microbial Proteins n/a
  • File
Microbial Proteins Comparison Plot Microbial Proteins Comparison Plot n/a
  • File
Microbial Proteins Volcano Plot Microbial Proteins Volcano Plot n/a
  • File
Human Proteins Human Proteins n/a
  • File
Human Proteins Volcano Plot Human Proteins Volcano Plot n/a
  • File
Human Proteins Comparison Plot Human Proteins Comparison Plot n/a
  • File

Version History

v0.1 (earliest) Created 26th Nov 2024 at 03:02 by WorkflowHub Bot

Updated to v0.1


Frozen v0.1 077029f
help Creators and Submitter
Creators
Not specified
Additional credit

GalaxyP

Submitter
Tools
Unipept
MSstats
License
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Activity

Views: 3260   Downloads: 8738   Runs: 6

Created: 26th Nov 2024 at 03:02

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