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2022-listeria-spectrum-similarity

Code and results for similarity calculation between endogenous and synthetic Listeria peptide spectra.

bioconda-recipes

Conda recipes for the bioconda channel.

biosaur

cascade-config

Cascading Python configuration from the CLI and config files

convert-config-hook

Pre-commit hook to convert JSON/TOML/YAML files

createrepo_c

C implementation of the createrepo.

deeplc

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

execnb

Execute a jupyter notebook, fast, without needing jupyter

github_style_poster_template

Academic poster PowerPoint template in a GitHub page style

hello_py

Dummy Cython project

ionmob

An open-source prediction framework for peptide ion collision cross section (CCS) values with python.

jsonschema2md

Convert JSON Schemas to simple, human-readable Markdown documentation. Repo archived in favor of fork: sbrunner/jsonschema2md2

machine_learning_course_ugent_d012554_kaggle

mokapot

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

ms2pip_c

msgfplus

MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence database.

mzspeclib-py

A python reference implementation of the mzSpecLib spectral library format

openms

The codebase of the OpenMS project

proxi-schemas

ProXI: Schema definitions for the Proteomics eXpression Interface

psi-mod-cv

Reactivated PSI-MOD ontology for molecular mass modifications

psims

A declarative API for writing XML documents for HUPO PSI-MS mzML and mzIdentML

pyascore

A python module for fast post translational modification localization, powered by Cython.

pyrawr

Python wrapper around the ThermoRawFileParser command line interface.

pyteomics

Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provides a growing set of modules to facilitate the most common tasks in proteomics data analysis.

python-wheels-manylinux-build

GitHub Action to build Python manylinux wheels

quarto-cli

Open-source scientific and technical publishing system built on Pandoc.

ralfg.github.io

Hugo Academic website

rustyms

A rust library for parsing ProForma peptides and matching them against MS spectra

sage

Proteomics search & quantification so fast that it feels like magic

schemastore

A collection of JSON schema files including full API