🧬 gget enables efficient querying of genomic reference databases

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

A Python API for the RCSB Protein Data Bank (PDB)

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

A Python-based Effective Feature Generation Tool from DNA, RNA, and Protein Sequences

A deep learning toolkit for mass spectrometry

Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.

DeepLC: Retention time prediction for (modified) peptides using Deep Learning.

Modular and user-friendly platform for AI-assisted rescoring of peptide identifications

Deep (Transfer) Learning for Peptide Retention Time Prediction

A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.

Fast and flexible semi-supervised learning for peptide detection in Python

Infrastructure of AlphaX ecosystem

National Microbiome Data Collaborative (NMDC) unified data model

Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis

pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning

A Comet-based, best practices proteomics pipeline.

🧪 🖥 Transparent exploration of machine learning for biomarker discovery from proteomics and omics data

A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file

Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python