Repositories list

• atlas-config

  Public
  HCL

  •0•0•0•0•Updated Feb 16, 2026Feb 16, 2026

• atlas

  Public
  Single-file quality control prototyping pipeline for diverse mass spectrometry workflows.

  quality-controlmass-spectrometrycomputational-proteomics+ 1nextflow-pipeline

  Nextflow

  •

  Other

  •1•2•12•0•Updated Feb 12, 2026Feb 12, 2026

• qcloud2-client

  Public
  Qcloud2 client

  TypeScript

  •0•0•5•1•Updated Feb 3, 2026Feb 3, 2026

• qsample-client

  Public
  The presentation layer of the QSample project, built with AngularJS. Designed to function as a submodule within the QSample Server repository, it does not requi…

  nodejsangularjsfront-end+ 2quality-controlmass-spectrometry

  TypeScript

  •

  MIT License

  •0•1•0•0•Updated Feb 3, 2026Feb 3, 2026

• qcloud2-server

  Public
  Qcloud2 server

  Java

  •0•0•5•0•Updated Jan 30, 2026Jan 30, 2026

• ribomsqc

  Public
  QC pipeline that monitors mass spectrometer performance in ribonucleoside analysis

  R

  •

  MIT License

  •2•0•1•0•Updated Nov 12, 2025Nov 12, 2025

• test-datasets

  Public
  Test data to be used for automated testing with the nf-core pipelines

  MIT License

  •461•0•0•0•Updated Oct 29, 2025Oct 29, 2025

• qsample-server

  Public
  Full-stack system for the QSample project, including both backend (Spring Boot) and frontend (QSample Client, AngularJS). Manages API requests, database intera…

  angularjsquality-controlspring-boot+ 3mass-spectrometrycomputational-proteomicsfull-stack-application

  Java

  •

  MIT License

  •1•2•23•0•Updated Aug 22, 2025Aug 22, 2025

• qcloud2-pipeline

  Public
  QCloud2 pipeline

  Nextflow

  •1•6•2•0•Updated Feb 20, 2025Feb 20, 2025

• MSCI

  Public
  Jupyter Notebook

  •

  MIT License

  •2•0•0•0•Updated Feb 13, 2025Feb 13, 2025

• FragPipe

  Public
  A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data

  Java

  •

  Other

  •43•0•0•0•Updated Oct 23, 2024Oct 23, 2024

• modules

  Public
  Repository to host tool-specific module files for the Nextflow DSL2 community!

  Nextflow

  •

  MIT License

  •967•0•0•0•Updated May 14, 2024May 14, 2024

• cv

  Public
  Mass spectrometry controlled vocabulary

  0•0•1•0•Updated Oct 16, 2023Oct 16, 2023

• peptide-stability

  Public
  CSS

  •1•2•2•0•Updated Jul 10, 2023Jul 10, 2023

• rawocop

  Public
  Smart, light, easy and robust Thermo RAW files backup program

  backupproteomicsmass-spectrometry+ 5rawraw-databackup-toolproteomics-datathermofisher

  Visual Basic .NET

  •0•2•0•0•Updated Jan 26, 2023Jan 26, 2023

• px-submission-tool

  Public
  ProteomeXchange data submission tool

  Java

  •6•0•1•0•Updated Jan 5, 2023Jan 5, 2023

• nf-tower

  Public
  Nextflow Tower system

  Groovy

  •

  Mozilla Public License 2.0

  •56•0•1•0•Updated Sep 8, 2022Sep 8, 2022

• OpenMS

  Public
  The codebase of the OpenMS project

  C++

  •

  Other

  •383•0•0•0•Updated Dec 2, 2021Dec 2, 2021

• QCloud

  Public
  A cloud-based system to support proteomics laboratories in daily quality assessment using a user-friendly interface, easy setup, automated data processing and a…

  quality-controlproteomicsmass-spectrometry+ 2openmsqcloud

  Java

  •0•2•0•0•Updated Oct 14, 2021Oct 14, 2021

• elixir_proteomics_QC

  Public
  Nextflow

  •

  BSD 3-Clause "New" or "Revised" License

  •2•0•0•0•Updated Jul 4, 2019Jul 4, 2019