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qpMerge

qpMerge is a Java library and Galaxy plugin for merging peptide isoforms into peptide-motifs.

Features

• Imports
  • MzQuantML
  • Tabular output from Progenesis or Maxquant
  • qpMerge XML
• Merge processes
  • AC: Alternative Cleavage site
  • AM: Alternative Modifications
  • CS: Charge State Variation
  • EMM: Exact Motif Matches
• Exports
  • MzQuantML
  • Tabular output
  • qpMerge XML

Getting started with qpMerge

1. qpMerge initial data objects
   • You need to provide a METADATA file (example METADATA) that describes the experimental variables
   • You need your data (example input) in a tabular or MzQuantML (this can capture METADATA without the need to specify it separately) format
2. qpMerge as a Java library
   • CodeDesign
   • DataModel
   • CodeByExample
3. qpMerge as a command line tool
   • Commands
4. qpMerge as plug-ins for Galaxy
   • Install Galaxy from https://wiki.galaxyproject.org/Admin/GetGalaxy
   • Install qpMerge