Repositories list

• bfabricPy

  Public
  API and commad line tools for b-fabric

  apirest-apisoap+ 4

  apirest-apisoapwsdlpython3bfabricshiny-r

  Python

  •

  GNU General Public License v3.0

  •22 forks•66 stars•2626 issues•66 pull requests•Updated Apr 22, 2026Apr 22, 2026

• bfabric_download_manager

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Apr 21, 2026Apr 21, 2026

• prolfqua

  Public
  Differential Expression Analysis tool box R lang package for omics data

  quality-controlr-packagehypothesis-testing+ 4

  quality-controlr-packagehypothesis-testingprotein-quantificationdifferential-expression-analysisrstats-packageproteomics-data-analysis

  R

  •

  Other

  •1010 forks•4646 stars•99 issues•00 pull requests•Updated Apr 17, 2026Apr 17, 2026

• New_SUSHI_2025

  Public
  TypeScript

  •

  MIT License

  •00 forks•22 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• depiction

  Public
  Process and Visualize Mass-Spectrometry Imaging (MSI) data

  Python

  •

  Apache License 2.0

  •11 fork•33 stars•88 issues•22 pull requests•Updated Mar 16, 2026Mar 16, 2026

• geo-uploader

  Public
  A Python GUI for the upload of NGS data to GEO

  JavaScript

  •

  MIT License

  •00 forks•33 stars•00 issues•00 pull requests•Updated Feb 27, 2026Feb 27, 2026

• rawrr

  Public
  Access Orbitrap data in R lang using C# .NET assembly - bioconductor package

  fastmultiplatformmass-spectrometry+ 2

  fastmultiplatformmass-spectrometryrpackageorbitrap-ms

  R

  •1111 forks•6161 stars•1616 issues•00 pull requests•Updated Feb 10, 2026Feb 10, 2026

• bfabricShiny

  Public
  Manage life sciences data using R and b-fabric - a WSDL/REST interface and a tool box; main focus on MS data

  shinywsdlmass-spectrometry+ 3

  shinywsdlmass-spectrometryexperimentsomicsbfabric

  R

  •

  GNU General Public License v3.0

  •22 forks•77 stars•1414 issues•11 pull request•Updated Jan 28, 2026Jan 28, 2026

• BioBeamer

  Public
  Python

  •44 forks•66 stars•55 issues•00 pull requests•Updated Dec 8, 2025Dec 8, 2025

• qg

  Public
  MS queue generator

  R

  •

  GNU General Public License v3.0

  •11 fork•11 star•33 issues•00 pull requests•Updated Dec 4, 2025Dec 4, 2025

• BioBeamerConfig

  Public
  biobeamer configurations

  00 forks•00 stars•00 issues•00 pull requests•Updated Sep 25, 2025Sep 25, 2025

• kaist-rna-bulk-sept2025

  Public
  Course materials for the RNA-seq portion of the 2025 KAIST course in South Korea

  HTML

  •00 forks•33 stars•00 issues•00 pull requests•Updated Sep 19, 2025Sep 19, 2025

• kaist-sc-rna-bcr-tcr-sept2025

  Public
  HTML

  •00 forks•33 stars•00 issues•00 pull requests•Updated Sep 19, 2025Sep 19, 2025

• BioBeamerLauncher

  Public
  Python

  •11 fork•00 stars•44 issues•00 pull requests•Updated Sep 10, 2025Sep 10, 2025

• exploreDE

  Public
  exploreDE

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 15, 2025Jul 15, 2025

• koina-paleo

  Public
  Makefile

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 9, 2024Oct 9, 2024

• MsBackendRawFileReader

  Public
  Spectra MsBackend for Thermo Fisher Scientific's New RawFileReader

  R

  •22 forks•66 stars•99 issues•00 pull requests•Updated Oct 1, 2024Oct 1, 2024

• rawDiag

  Public
  Brings Orbitrap mass spectrometry data to life; multi-platform, fast and colorful R package

  visualizationfastr+ 4

  visualizationfastrmultiplatformmass-spectrometryrpackageorbitrap

  R

  •1111 forks•3737 stars•4040 issues•00 pull requests•Updated May 1, 2024May 1, 2024

• RawFileReader

  Public
  C#

  •

  Other

  •3030 forks•00 stars•00 issues•00 pull requests•Updated Sep 8, 2023Sep 8, 2023

• msqc1

  Public
  mirror of bioc msqc1 package

  quality-controlhplclcms

  quality-controlhplclcms

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 9, 2022Dec 9, 2022

• specL

  Public
  prepare peptide spectrum matches for use in targeted proteomics using R and Bioconductor

  proteomicsdiadda+ 1

  proteomicsdiaddamass-spectrometry

  R

  •11 fork•11 star•11 issue•00 pull requests•Updated Dec 8, 2022Dec 8, 2022

• RprxHUPO2021

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 11, 2021Nov 11, 2021

• alphapept

  Public
  A modular, python-based framework for mass spectrometry. Powered by nbdev.

  Jupyter Notebook

  •

  Apache License 2.0

  •3535 forks•00 stars•00 issues•00 pull requests•Updated Jul 26, 2021Jul 26, 2021

• fcc

  Public
  An automated rule-based processing tool for life science data.

  pythonautomationinstrument+ 2

  pythonautomationinstrumentreproducible-sciencelife-science-data

  Python

  •11 fork•22 stars•00 issues•00 pull requests•Updated Oct 26, 2020Oct 26, 2020

• PyFGCZ

  Public
  Move and Convert Mass Spectrometry Data using BioBeamer and FCC

  automationrobotworkflow-engine+ 4

  automationrobotworkflow-enginepython3high-throughputdata-processingstaging-algorithm

  Python

  •

  GNU General Public License v3.0

  •11 fork•22 stars•22 issues•00 pull requests•Updated Aug 11, 2020Aug 11, 2020

• prosit

  Public
  Prosit offers high quality MS2 predicted spectra for any organism and protease as well as iRT prediction. When using Prosit is helpful for your research, please…

  Python

  •

  Apache License 2.0

  •4545 forks•00 stars•00 issues•00 pull requests•Updated Nov 19, 2019Nov 19, 2019

• ISCB2017

  Public
  This R package contains data and vignette files for a Pigeon Pea (Cajanus cajan) project from a Indo-Swiss Collaboration in Biotechnology (ISCB) training course…

  analysisnrcpbiscb+ 2

  analysisnrcpbiscbprotein-quantificationpigeon-pea

  Python

  •00 forks•22 stars•00 issues•00 pull requests•Updated Sep 4, 2018Sep 4, 2018

• shinyStore

  Public
  R package that adds HTML5 Local Storage support to Shiny

  R

  •

  MIT License

  •2020 forks•00 stars•00 issues•00 pull requests•Updated Nov 25, 2016Nov 25, 2016

• xlinkx

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Sep 7, 2016Sep 7, 2016

• cakeme

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 23, 2016Aug 23, 2016