Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
☆30Feb 12, 2026Updated 2 weeks ago
Alternatives and similar repositories for psm_utils
Users that are interested in psm_utils are comparing it to the libraries listed below
Sorting:
- Collisional cross-section prediction for modified and multiconformational peptides☆13Feb 18, 2026Updated last week
- DeepLC: Retention time prediction for peptides carrying any modification.☆73Jan 13, 2026Updated last month
- Modular and user-friendly platform for AI-assisted rescoring of peptide identifications☆62Feb 11, 2026Updated 2 weeks ago
- Democratizing ML in proteomics☆50Feb 2, 2026Updated 3 weeks ago
- mzSpecLib: A standard format to exchange/distribute spectral libraries☆30Oct 31, 2025Updated 4 months ago
- Scalable, accurate and sensitive protein group FDRs for large-scale mass spectrometry experiments☆13Feb 17, 2026Updated last week
- ☆28May 20, 2025Updated 9 months ago
- ☆19Feb 13, 2026Updated 2 weeks 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
- ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…☆50Updated this week
- Fast and flexible semi-supervised learning for peptide detection in Python☆49Feb 27, 2025Updated last year
- Brings Orbitrap mass spectrometry data to life; multi-platform, fast and colorful R package☆37May 1, 2024Updated last year
- MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.☆49Feb 10, 2026Updated 2 weeks ago
- An open-source Python package to unify raw MS data accession and storage.☆31Feb 6, 2026Updated 3 weeks ago
- This is a collection of minimal code to visualize various aspects of proteomics data.☆82Jan 6, 2022Updated 4 years ago
- PepQuery: a targeted peptide search engine☆15May 1, 2024Updated last year
- ☆12Jan 29, 2026Updated last month
- ☆45Mar 14, 2025Updated 11 months ago
- ☆15May 30, 2025Updated 8 months ago
- Python client for PRIDE Archive Rest API.☆36Feb 6, 2026Updated 3 weeks ago
- A deep learning toolkit for mass spectrometry☆87Jan 7, 2026Updated last month
- Differential Expression Analysis tool box R lang package for omics data☆47Updated this week
- MSLibrarian is an R-package to optimize predicted spectral libraries for DIA proteomics☆14Aug 25, 2022Updated 3 years ago
- Rescoring and spectral library generation pipeline for proteomics.☆53Feb 4, 2026Updated 3 weeks ago
- A python interface to the SAGE search engine for mass spectrometry proteomics☆15Jan 16, 2026Updated last month
- De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model☆177Updated this week
- Proteomics search & quantification so fast that it feels like magic☆273Jan 6, 2026Updated last month
- A Python package for amino acid sequence analysis. Proforma 2.1 complicant.☆14Feb 6, 2026Updated 3 weeks ago
- A python package for fast post translational modification localization, powered by Cython.☆20Dec 15, 2023Updated 2 years ago
- Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provi…☆150Feb 11, 2026Updated 2 weeks ago
- Implementation of UniSpec, a deep learning model for predicting full fragment ion peptide spectra.☆12Feb 11, 2025Updated last year
- Infrastructure of AlphaX ecosystem☆53Jan 30, 2026Updated 3 weeks ago
- A Framework for IMS-MS Raw Data Processing written in Rust and Python.☆19Feb 19, 2026Updated last week
- EasyPQP: Simple library generation for OpenSWATH☆11Feb 20, 2026Updated last week
- PGx supports proteogenomic intregration of mass spectrometry (MS) proteomics data with next generation sequencing (NGS) by mapping identi…☆10Jul 9, 2024Updated last year
- Peptide Correlation analysis☆11Oct 3, 2024Updated last year
- Convert MSP files into a database☆10May 4, 2021Updated 4 years ago
- The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code☆26Oct 2, 2025Updated 4 months ago
- Repository for mzIdentML and the corresponding examples☆26Jan 16, 2026Updated last month