A cross-platform proteomics data analysis suite
☆304Jun 25, 2026Updated this week
Alternatives and similar repositories for FragPipe
Users that are interested in FragPipe are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics☆132Mar 23, 2026Updated 3 months ago
- DIA-NN - a universal automated software suite for DIA proteomics data analysis.☆451Jun 18, 2026Updated last week
- PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering☆128Apr 19, 2026Updated 2 months ago
- Proteomics search & quantification so fast that it feels like magic☆297Jun 5, 2026Updated 3 weeks ago
- PDV: an integrative proteomics data viewer☆64Updated this week
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring☆22Jun 23, 2026Updated last week
- A tool for summarizing open search results☆16May 5, 2026Updated last month
- A label free quantification tool.☆20Jan 13, 2026Updated 5 months ago
- A reporting pipeline for visualization of immunopeptidomics MS data.☆16Nov 19, 2022Updated 3 years ago
- Semi-supervised learning for peptide identification from shotgun proteomics datasets☆142May 21, 2026Updated last month
- Report processing and protein quantification for MS-based proteomics☆55Jun 29, 2023Updated 3 years ago
- Fast and accurate label-free quantification for small and very large numbers of proteomes☆62Jun 16, 2026Updated 2 weeks ago
- An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.☆94Nov 17, 2025Updated 7 months ago
- An open-source Python package for efficient accession and visualization of Bruker TimsTOF raw data from the Mann Labs at the Max Planck I…☆96Jun 3, 2026Updated 3 weeks ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- An tandem mass spectrometry (MS/MS) sequence database search tool.☆55Jun 24, 2026Updated last week
- ☆31Jun 15, 2026Updated 2 weeks ago
- High quality in silico spectral library generation for data-independent acquisition proteomics☆22Jun 19, 2026Updated last week
- Access Orbitrap data in R lang using C# .NET assembly - bioconductor package☆62Feb 10, 2026Updated 4 months ago
- Democratizing ML in proteomics☆55May 6, 2026Updated last month
- An easy-to-use and interactive web application for FragPipe☆14Mar 8, 2026Updated 3 months ago
- Modular and user-friendly platform for AI-assisted rescoring of peptide identifications☆66Apr 11, 2026Updated 2 months ago
- Fast and flexible semi-supervised learning for peptide detection in Python☆52Jun 19, 2026Updated last week
- MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence …☆83Mar 26, 2026Updated 3 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Deep learning framework for proteomics☆154Jun 10, 2026Updated 3 weeks ago
- Differential Expression Analysis tool box R lang package for omics data☆46Updated this week
- AutoRT: Peptide retention time prediction using deep learning☆30Jul 31, 2024Updated last year
- Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provi…☆161Updated this week
- The codebase of the OpenMS project☆602Updated this week
- De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model☆189Jun 24, 2026Updated last week
- Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics☆25Apr 8, 2026Updated 2 months ago
- A tool integrates channel abundances from multiple TMT samples and exports a general report for downstream analysis.☆14Apr 21, 2026Updated 2 months ago
- The repo for LFQ-Analyst☆31Aug 7, 2024Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono☆247Jun 24, 2026Updated last week
- A list of tools on proteomics using deep learning☆108May 14, 2026Updated last month
- The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code☆26Jun 5, 2026Updated 3 weeks ago
- The Git Account of LCMSMethods.org☆11Jun 1, 2019Updated 7 years ago
- Open-source C++ and Python module for opening binary timsTOF data files.☆50Apr 22, 2026Updated 2 months ago
- Base Classes and Functions for Mass Spectrometry and Proteomics☆137May 4, 2026Updated last month
- A python interface to the SAGE search engine for mass spectrometry proteomics☆15Updated this week