PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering
☆125Feb 12, 2026Updated last month
Alternatives and similar repositories for philosopher
Users that are interested in philosopher are comparing it to the libraries listed below
Sorting:
- Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics☆128Jan 13, 2026Updated 2 months ago
- A tool for summarizing open search results☆16Dec 19, 2025Updated 3 months ago
- A cross-platform proteomics data analysis suite☆282Updated this week
- Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics☆23Jul 25, 2025Updated 7 months ago
- An tandem mass spectrometry (MS/MS) sequence database search tool.☆53Updated this week
- The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code☆26Oct 2, 2025Updated 5 months ago
- ☆15Apr 27, 2022Updated 3 years ago
- Fast and flexible semi-supervised learning for peptide detection in Python☆50Feb 27, 2025Updated last year
- Semi-supervised learning for peptide identification from shotgun proteomics datasets☆144Nov 21, 2025Updated 4 months ago
- Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…☆68Mar 13, 2026Updated last week
- A label free quantification tool.☆18Jan 13, 2026Updated 2 months ago
- A tool integrates channel abundances from multiple TMT samples and exports a general report for downstream analysis.☆13Mar 11, 2026Updated last week
- A Python interface to proteomics data repositories☆36Jun 19, 2025Updated 9 months ago
- ☆15May 30, 2025Updated 9 months ago
- DIA-NN - a universal automated software suite for DIA proteomics data analysis.☆431Feb 5, 2026Updated last month
- Proteomics search & quantification so fast that it feels like magic☆278Mar 12, 2026Updated last week
- Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono☆239Mar 7, 2026Updated 2 weeks ago
- PDV: an integrative proteomics data viewer☆61Feb 18, 2026Updated last month
- Feature finding algorithm for detection of isotope patterns in HPLC mass spectrometry data.☆46Jun 27, 2022Updated 3 years ago
- mzSpecLib: A standard format to exchange/distribute spectral libraries☆30Oct 31, 2025Updated 4 months ago
- QUANtification by Distillation for ENhanced Signals with Error Regulation☆10Aug 20, 2022Updated 3 years ago
- ☆24Feb 26, 2023Updated 3 years ago
- Computational analysis for mass spectrometry-based proteomics data☆20Feb 22, 2026Updated 3 weeks ago
- Differential Expression Analysis tool box R lang package for omics data☆47Updated this week
- The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets☆100Updated this week
- MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence …☆84Oct 23, 2025Updated 4 months ago
- ☆14Jan 27, 2022Updated 4 years ago
- Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities☆108Updated this week
- An easy-to-use and interactive web application for FragPipe☆13Mar 8, 2026Updated last week
- A list of tools on proteomics using deep learning☆106May 5, 2024Updated last year
- ☆28May 20, 2025Updated 10 months ago
- Python client for PRIDE Archive Rest API.☆36Feb 6, 2026Updated last month
- MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.☆50Feb 10, 2026Updated last month
- MS File ToolBox - tools for parsing some mass-spectrometry related file formats (mzML, mzXML, pep.xml, prot.xml, etc.)☆12Aug 26, 2022Updated 3 years ago
- MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring☆21Mar 11, 2026Updated last week
- ☆13Mar 19, 2024Updated 2 years ago
- The codebase of the OpenMS project☆575Updated this week
- A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file☆33Apr 19, 2021Updated 4 years ago
- A modular, python-based framework for mass spectrometry. Powered by nbdev.☆185Apr 19, 2024Updated last year