Repositories list

• psi-ms-CV

  Public
  HUPO-PSI mass spectrometry CV

  mass-spectrometryobofoundry

  Python

  •

  Other

  •44•39•7•3•Updated Dec 5, 2025Dec 5, 2025

• psi-mod-browser

  Public
  A lightweight Vue 3 web application for browsing and searching the PSI-MOD controlled vocabulary of protein residue modifications with filtering, cross-references, and SMILES visualization.

  Vue

  •

  Apache License 2.0

  •0•1•0•0•Updated Dec 5, 2025Dec 5, 2025

• psi-mod-CV

  Public
  PSI-MOD ontology for modified and unmodified amino acid residues

  proteomicsmass-spectrometryptm+ 6amino-acidsmodificationshupo-psiobofoundrypost-translational-modificationcontrolled-vocabulary

  Python

  •

  Creative Commons Attribution 4.0 International

  •15•14•20•2•Updated Dec 5, 2025Dec 5, 2025

• xlmod-CV

  Public
  Repo for the XLMOD ontology for chemical cross linkers

  XSLT

  •

  Apache License 2.0

  •3•1•1•1•Updated Dec 5, 2025Dec 5, 2025

• mzQC

  Public
  Reporting and exchange format for mass spectrometry quality control data

  quality-controlmetricsmass-spectrometry

  Dockerfile

  •

  Creative Commons Attribution 4.0 International

  •15•32•25•3•Updated Nov 29, 2025Nov 29, 2025

• psi-mi-CV

  Public
  Molecular Interactions Controll Vocabulary

  Creative Commons Attribution 4.0 International

  •4•4•14•0•Updated Nov 18, 2025Nov 18, 2025

• psi-tools

  Public
  Previous https://sourceforge.net/p/psidev/svn/HEAD/tree/psi/tools/ folder

  Java

  •2•2•1•0•Updated Nov 18, 2025Nov 18, 2025

• ProForma

  Public
  HUPO-PSI Standardized peptidoform notation

  standardsproteomicsmass-spectrometry+ 1peptidoform

  Rust

  •5•21•2•0•Updated Nov 14, 2025Nov 14, 2025

• mzTab-M

  Public
  Development of the mzTab-M standard data form

  CSS

  •4•5•39•2•Updated Nov 6, 2025Nov 6, 2025

• mzSpecLib

  Public
  mzSpecLib: A standard format to exchange/distribute spectral libraries

  standardsfile-formatproteomics+ 3mass-spectrometryhupo-psispectral-library

  Python

  •

  Apache License 2.0

  •14•30•4•4•Updated Oct 31, 2025Oct 31, 2025

• usi

  Public
  Universal Spectrum Identifier for Mass Spectrometry

  Apache License 2.0

  •3•6•4•0•Updated Sep 19, 2025Sep 19, 2025

• mzPAF

  Public
  mzPAF Peak Annotation Format

  Jupyter Notebook

  •

  Creative Commons Zero v1.0 Universal

  •4•3•1•1•Updated Sep 5, 2025Sep 5, 2025

• psi-ai.org

  Public
  Community-driven website of the AI-readiness working group. Feel free to contribute!

  CSS

  •0•0•1•0•Updated Jul 29, 2025Jul 29, 2025

• hupo-psi.org

  Public
  Simple HTTP redirect page from hupo-psi.org to psidev.info

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated Jul 29, 2025Jul 29, 2025

• mzspeclib-py

  Public
  A python reference implementation of the mzSpecLib spectral library format

  Python

  •

  Apache License 2.0

  •2•5•1•0•Updated Jul 11, 2025Jul 11, 2025

• mzTab

  Public
  mzTab Reporting MS-based Proteomics and Metabolomics Results

  Java

  •17•43•10•8•Updated Apr 1, 2025Apr 1, 2025

• miTab

  Public
  Molecular Interactions Tab-delimited format

  0•4•0•0•Updated Oct 29, 2024Oct 29, 2024

• hupo-psi.github.io

  Public
  Landing site for GitHub Pages

  Apache License 2.0

  •0•0•0•0•Updated Sep 6, 2024Sep 6, 2024

• mzIdentML

  Public
  Repository for mzIdentML and the corresponding examples

  HTML

  •24•25•14•3•Updated Jun 25, 2024Jun 25, 2024

• mzML

  Public
  Repository for mzML and the corresponding examples

  Java

  •16•33•3•1•Updated Apr 5, 2024Apr 5, 2024

• MIAPE

  Public
  A repository of MIAPE documents and examples

  Apache License 2.0

  •0•1•0•0•Updated Jan 16, 2024Jan 16, 2024

• psi-doc-proc

  Public
  0•0•0•0•Updated Jul 12, 2023Jul 12, 2023

• proxi-schemas

  Public
  ProXI: Schema definitions for the Proteomics eXpression Interface

  apiswaggerschemas+ 3proteomicsproteomics-dataproteomexchange

  JavaScript

  •3•3•24•1•Updated Apr 17, 2023Apr 17, 2023

• mzidentml-validator

  Public
  mzidentml validator ui and command line tool

  Java

  •

  Apache License 2.0

  •0•0•10•0•Updated Oct 7, 2022Oct 7, 2022

• PEFF

  Public
  Repository for the PSI Extended FASTA Format

  Apache License 2.0

  •2•7•13•0•Updated Apr 5, 2021Apr 5, 2021

• glycopeptides_in_mzidentml

  Public
  Effort to extend support for encoding glycopeptides in mxIdentML

  0•1•0•0•Updated Mar 28, 2021Mar 28, 2021

• miXML

  Public
  Molecular Interaction XML Format

  HTML

  •3•5•0•0•Updated Mar 1, 2021Mar 1, 2021

• gelml

  Public
  PSI standard for Gel experiments

  the

  HTML

  •3•2•1•1•Updated Dec 15, 2018Dec 15, 2018

• psidev-cvs-legacy

  Public
  psidev legacy works from sourceforge cvs

  HTML

  •1•0•1•0•Updated Oct 12, 2017Oct 12, 2017

• mzQuantML

  Public
  1•3•0•0•Updated Oct 12, 2015Oct 12, 2015