Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
☆68Mar 13, 2026Updated last week
Alternatives and similar repositories for quantms
Users that are interested in quantms are comparing it to the libraries listed below
Sorting:
- qpx (Quantitative Proteomics eXchange) format (aka quantms.io) a format to capture a full proteomics experiment☆16Updated this week
- A library for QC report based on MultiQC framework☆29Updated this week
- Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…☆38May 6, 2024Updated last year
- Absolute quantification package based on quantms.io☆16Sep 25, 2025Updated 5 months ago
- This repository attempts to implement a neural net that leverages the transformer architecture to predict peptide properties (retention t…☆11Nov 22, 2024Updated last year
- ☆15May 30, 2025Updated 9 months ago
- The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets☆100Updated this week
- PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering☆125Feb 12, 2026Updated last month
- Rescoring and spectral library generation pipeline for proteomics.☆53Mar 6, 2026Updated 2 weeks ago
- `sdrf-pipelines` is the official SDRF file validator and converts SDRF to pipeline configuration files☆29Mar 13, 2026Updated last week
- Fast and flexible semi-supervised learning for peptide detection in Python☆50Feb 27, 2025Updated last year
- Recommendations to contenarized your bioinformatics software☆12May 30, 2018Updated 7 years ago
- DIA-NN - a universal automated software suite for DIA proteomics data analysis.☆429Feb 5, 2026Updated last month
- This project is created by the Hao Lab at the Department of Chemistry & Biochemistry, University of Maryland, College Park, MD. This proj…☆31Nov 24, 2024Updated last year
- High quality in silico spectral library generation for data-independent acquisition proteomics☆18Mar 11, 2026Updated last week
- Proteomics search & quantification so fast that it feels like magic☆278Mar 12, 2026Updated last week
- Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provi…☆151Mar 11, 2026Updated last week
- R package - MSstats☆92Mar 13, 2026Updated last week
- ☆28May 20, 2025Updated 10 months ago
- Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities☆108Updated this week
- AutoRT: Peptide retention time prediction using deep learning☆30Jul 31, 2024Updated last year
- An open-source Python package to unify raw MS data accession and storage.☆31Updated this week
- An tandem mass spectrometry (MS/MS) sequence database search tool.☆53Feb 19, 2026Updated last month
- Estimation of isoelectric point of peptides and proteins using support vector machines (SVM).☆10Sep 10, 2016Updated 9 years ago
- De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model☆180Updated this week
- ☆38Mar 11, 2026Updated last week
- Fundamental functions, annotation pipeline and constants for oktoberfest☆13Updated this week
- A tool integrates channel abundances from multiple TMT samples and exports a general report for downstream analysis.☆13Mar 11, 2026Updated last week
- MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.☆50Feb 10, 2026Updated last month
- A Python interface to proteomics data repositories☆36Jun 19, 2025Updated 9 months ago
- Modular and user-friendly platform for AI-assisted rescoring of peptide identifications☆63Mar 12, 2026Updated last week
- Implementation of the MSqRob analysis of differentially expressed proteins using the Features infrastructure☆13Dec 17, 2025Updated 3 months ago
- Material for the 2017 May Institute☆13Jun 25, 2017Updated 8 years ago
- MS/MS prediction for peptides☆24Dec 18, 2020Updated 5 years ago
- Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono☆239Mar 7, 2026Updated last week
- A python package for fast post translational modification localization, powered by Cython.☆20Dec 15, 2023Updated 2 years ago
- R-based package for detecting differentially abundant proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass …☆30Jul 28, 2025Updated 7 months ago
- Spectral library searching using approximate nearest neighbor techniques.☆48Feb 11, 2026Updated last month
- ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…☆51Mar 12, 2026Updated last week