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    39 repositories

    • OpenMS

      Public
      The codebase of the OpenMS project
      windowsmacoslinuxc-plus-plusalgorithmsproteomicsmetabolomicsmass-spectrometryopenmsms-data
      C++
      •
      Other
      •378•561•307•69•Updated Jan 31, 2026Jan 31, 2026

    • pyopenms-docs

      Public
      pyOpenMS readthedocs documentation, additional utilities, addons, scripts, and examples.
      pythonopenmsms-datahacktoberfesthacktoberfest2022
      Python
      •
      Other
      •73•50•48•5•Updated Jan 30, 2026Jan 30, 2026

    • umetaflow

      Public
      Graphical user interface for the UmetaFlow pipepline for the analysis of metabolomics LC-MS data.
      Python
      •10•10•0•1•Updated Jan 30, 2026Jan 30, 2026

    • quantms-web

      Public
      Python
      •
      Other
      •0•0•0•5•Updated Jan 30, 2026Jan 30, 2026

    • streamlit-template

      Public
      Python
      •
      Other
      •34•16•33•23•Updated Jan 30, 2026Jan 30, 2026

    • OpenMS-docs

      Public
      OpenMS Documentation.
      hacktoberfest
      CSS
      •
      BSD 3-Clause "New" or "Revised" License
      •26•2•56•10•Updated Jan 29, 2026Jan 29, 2026

    • OpenMS-website

      Public
      Hugo sources for the OpenMS website
      HTML
      •
      Other
      •18•0•4•3•Updated Jan 29, 2026Jan 29, 2026

    • OpenMS-toolbox

      Public
      Python
      •
      Other
      •0•0•0•5•Updated Jan 29, 2026Jan 29, 2026

    • streamlit-deployment

      Public
      Streamlit deployment with Docker
      10•1•0•4•Updated Jan 28, 2026Jan 28, 2026

    • pyopenms_viz

      Public
      Streamlining Mass Spectrometry Data Visualization with Pandas
      visualizationpandasmass-spectrometry
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •19•21•9•7•Updated Jan 28, 2026Jan 28, 2026

    • usage_plots

      Public
      Scripts for generating plots about the usage of OpenMS
      Python
      •4•2•0•2•Updated Jan 15, 2026Jan 15, 2026

    • autowrap

      Public
      Generates Python Extension modules from Cythons PXD files
      Python
      •
      Other
      •23•77•33•5•Updated Jan 14, 2026Jan 14, 2026

    • oDIAFlow

      Public
      An Open Nextflow pipeline for analyzing DIA-MS (Data-Independent Acquisition Mass Spectrometry) data.
      Nextflow
      •
      BSD 3-Clause "New" or "Revised" License
      •1•5•17•0•Updated Dec 20, 2025Dec 20, 2025

    • Assets

      Public
      Additional files (logos, splash screen, icons)
      Other
      •2•0•3•0•Updated Dec 18, 2025Dec 18, 2025

    • openms-python

      Public
      Pythonic wrappers around PyOpenMS !!!!!!!!!!! under heavy development - only for internal use !!!!!!!!!!!
      Python
      •1•0•0•1•Updated Dec 16, 2025Dec 16, 2025

    • bioconda-recipes

      Public
      Conda recipes for the bioconda channel.
      Shell
      •
      MIT License
      •3.7k•0•0•0•Updated Dec 12, 2025Dec 12, 2025

    • contrib

      Public
      Automated CMake build scripts for the OpenMS contrib libraries
      CMake
      •
      Other
      •22•0•4•1•Updated Dec 12, 2025Dec 12, 2025

    • de.openms.knime

      Public
      Nodes etc. related to OpenMS
      Java
      •8•3•12•1•Updated Dec 11, 2025Dec 11, 2025

    • Tutorials

      Public
      a dummy repo so we can have a checksum for GHA
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Dec 11, 2025Dec 11, 2025

    • THIRDPARTY

      Public
      External binary dependencies (e.g. search engine binaries) packaged in installers
      13•2•1•1•Updated Dec 11, 2025Dec 11, 2025

    • FLASHApp

      Public
      Python
      •
      Other
      •0•0•0•4•Updated Dec 3, 2025Dec 3, 2025

    • mz-calculator

      Public archive
      Python
      •
      Other
      •0•1•0•5•Updated Oct 20, 2025Oct 20, 2025

    • contrib-sources

      Public
      Holds the packaged sources of chosen and tested versions of most of our needed contrib libraries.
      0•0•0•0•Updated Oct 15, 2025Oct 15, 2025

    • dockerfiles

      Public archive
      This repository holds Dockerfiles for creating docker images for several OpenMS configurations based on different base images.
      Dockerfile
      •8•2•2•0•Updated Jun 2, 2025Jun 2, 2025

    • OpenMS-Tutorials

      Public
      Tutorials as used in the user meetings. (Please assign a git tag for the revision used for the UM)
      hacktoberfest
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •19•14•38•0•Updated May 20, 2025May 20, 2025

    • PTMScanner

      Public
      SagePTMScanner OpenMS WebApp
      Python
      •1•0•0•2•Updated Mar 11, 2025Mar 11, 2025

    • .github

      Public
      OpenMS organization public GitHub profile repository
      BSD 3-Clause "New" or "Revised" License
      •2•2•0•0•Updated Mar 4, 2025Mar 4, 2025

    • openms.github.io

      Public
      Code for our new webpage
      HTML
      •0•0•0•0•Updated Sep 3, 2024Sep 3, 2024

    • NSIS

      Public
      A ready-to-use NSIS with 8k strings support and ModernUI
      0•2•0•0•Updated Nov 9, 2023Nov 9, 2023

    • build-scripts

      Public
      Holds the scripts for setting up basic platform specific (but machine independent) environments to build OpenMS for different purposes.
      CMake
      •2•2•2•0•Updated Aug 15, 2023Aug 15, 2023