Staff Research engineer at @instadeepai – Machine Learning for personalized cancer vaccines, de novo peptide sequencing and signal peptides.
Repositories
BioGeek/biogeek.github.io
Personal website https://jeroen.vangoey.be
BioGeek/SchaakStudieSpinsels2
BioGeek/pip-tools
A set of tools to keep your pinned Python dependencies fresh.
BioGeek/test-datasets
Test data to be used for automated testing with the nf-core pipelines
BioGeek/Ninikske
BioGeek/sparsestack-feedstock
A conda-smithy repository for sparsestack.
BioGeek/BioGeek
BioGeek/paleoproteomics_summer_school
BioGeek/winnow
Confidence control and FDR estimation for de novo peptide sequencing
BioGeek/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.
BioGeek/mmgroup
Python implementation of the monster group
BioGeek/pynndescent-feedstock
A conda-smithy repository for pynndescent.
BioGeek/bioconda-recipes
Conda recipes for the bioconda channel.
BioGeek/casanovo
De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model
BioGeek/qpx
qpx (Quantitative Proteomics eXchange) format (aka quantms.io) a format to capture a full proteomics experiment
BioGeek/mzdata
BioGeek/mzPeak
BioGeek/MassSpectrum-Analyzer
MassSpectrum-Analyzer is a tool for analysis of peptide spectral data
BioGeek/sdrf-templates
SDRF templates and validation yaml files from specification proteomics-sample-metadata
BioGeek/sdrf-pipelines
SDRF official validator and converts SDRF to pipeline configuration files
BioGeek/sdrf-annotated-datasets
A repository of datasets in ProteomeXchange annotated in SDRF, previously part of the specification
BioGeek/donkeycar
Open source hardware and software platform to build a small scale self driving car.
BioGeek/jumanji
🌴 A Suite of Industry-Driven Hardware-Accelerated RL Environments written in JAX
BioGeek/tinygrad
You like pytorch? You like micrograd? You love tinygrad! ❤️
BioGeek/koina
Democratizing ML in proteomics
BioGeek/indaba-pracs-2023
Notebooks for the Practicals at the Deep Learning Indaba 2023.
BioGeek/tools-galaxyp
Galaxy Tool Shed repositories maintained and developed by the GalaxyP community
BioGeek/peptide-shaker-online
Web-based framework for interactive visual analysis of proteomics data
BioGeek/denovogui
Graphical user interface for de novo sequencing of tandem mass spectra