This is the guide to mzQC resources from software libraries, QC software supporting mzQC, to validation.

Core libraries

  • pymzqc: Python library to create, process, and validate mzQC files. It includes a Python object model, (de-)serialisation functions, syntactic validation, and semantic validation of mzQC files.
  • jmzqc: Java library to create, process, and validate mzQC files. It includes a Java object model, (de-)serialisation functions, syntactic validation, and semantic validation of mzQC files.
  • rmzqc: R library to create, process, and validate mzQC files. It includes a R object model, (de-)serialisation functions, syntactic validation, and semantic validation of mzQC files. In development.

QC Software

Metrics generating software with mzQC support:

  • PTXQC: An R package for creation of QC reports from MaxQuant results and OpenMS mzTab files.
  • OpenMS: Open-source software C++ library for LC/MS data management and analyses.
  • QCCalculator: Python tool for base QC metric calculation from mzML, mzIdentML, and MaxQuant input files.
  • Yamato / SwaMe / Prognosticator: SWATH-MS QC metrics generation tools.

A Hub for QC

If you are looking for a home to your QC software or library, check out MS-Quality-Hub. All the above libraries have their development home there and some other very useful repositories.