The Wayback Machine - https://web.archive.org/web/20210724011308/https://github.com/topics/proteomics
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364 public repositories
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The codebase of the OpenMS project
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Updated
Sep 21, 2020
Python
A collection of Galaxy-related training material
Updated
Jul 23, 2021
HTML
Various teaching material
Updated
Jan 12, 2021
HTML
A Python API for the RCSB Protein Data Bank (PDB)
Updated
Jun 10, 2021
Python
Protein-Level ASSembler (PLASS): sensitive and precise protein assembler
Base Classes and Functions for Mass Spectrometry and Proteomics
A complete toolkit for shotgun proteomics data analysis
A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
Updated
Jul 23, 2021
HTML
A Python-based Effective Feature Generation Tool from DNA, RNA, and Protein Sequences
Updated
Sep 14, 2020
Python
Using R and Bioconductor packages for the analysis and comprehension of proteomics data.
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
Updated
May 10, 2021
Objective-C
Prize-Collecting Steiner Forests for Interactomes
Updated
Mar 25, 2021
Jupyter Notebook
Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
Updated
Jul 21, 2021
HTML
Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis
Updated
Jul 9, 2021
Python
A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
Updated
Apr 19, 2021
Python
Compare different differential abundance and expression methods
Deep (Transfer) Learning for Peptide Retention Time Prediction
Updated
Jun 18, 2021
Python
Feature Annotation Location Description Ontology
Updated
Jan 21, 2020
XSLT
Toolbox for including enzyme constraints on a genome-scale model.
Updated
Jul 2, 2021
MATLAB
Interpretation of proteomics identification results
A Quality Control (QC) pipeline for Proteomics (PTX) results generated by MaxQuant
Updated
Jul 13, 2021
HTML
PDV: an integrative proteomics data viewer
Updated
Jun 14, 2021
Java
Highly adaptable common interface for proteomics search and de novo engines
Open source Java library for computational proteomics
pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning
Updated
Aug 22, 2019
Python
🧪 🖥 Transparent exploration of machine learning for biomarker discovery from proteomics and omics data
Updated
Jul 21, 2021
Python
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The following project @qinchunyuan needs to be fixed:
https://github.com/bigbio/proteomics-metadata-standard/tree/fb26f36359d8118534cf5e9025d15dcc021bb62c/annotated-projects/PXD008222
The project is a cell line project but the information about the cell-line are not included.