BioGeek
Staff Research engineer at @instadeepai – Machine Learning for personalized cancer vaccines, de novo peptide sequencing and signal peptides.
@instadeepaiCape Town, South Africa
Pinned Repositories
50-examples
Contains the text of a book describing interesting examples of Python programming for use in teaching. An alternate title was "The Python Teaching Cookbook".
adventofcode
My solutions of Advent Of Code in Python
aima
Python implementation of algorithms from Russell and Norvig's Artificial Intelligence: A Modern Approach.
BioGeek
euler
My solutions to Project Euler
hackathon_indaba_senegal_2024
hackathon_indabaX_2024
Data and starter notebooks for the locust breeding ground prediction hackaton
magic
Scanner for decks of cards with bar codes printed on card edges
pymzML
pymzML - an interface between Python and mzML Mass spectrometry Files
InstaNovo
De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments
BioGeek's Repositories
BioGeek/adventofcode
My solutions of Advent Of Code in Python
BioGeek/hackathon_indabaX_2024
Data and starter notebooks for the locust breeding ground prediction hackaton
BioGeek/biogeek.github.io
Personal website https://jeroen.vangoey.be
BioGeek/hackathon_indaba_senegal_2024
BioGeek/jumanji
🌴 A Suite of Industry-Driven Hardware-Accelerated RL Environments written in JAX
BioGeek/LLMs-from-scratch
Implementing a ChatGPT-like LLM in PyTorch from scratch, step by step
BioGeek/os-proteomics
View point in Open source in Proteomics
BioGeek/SchaakStudieSpinsels2
BioGeek/arxiv-frontpage
My personal frontpage app
BioGeek/Awesome-Denovo-Peptide-Sequencing
Paper collection about de novo peptide Sequening
BioGeek/bayesian-flow-networks
This is the official code release for Bayesian Flow Networks.
BioGeek/bioconda-recipes
Conda recipes for the bioconda channel.
BioGeek/DDPD
Code for Paper "Think While You Generate: Discrete Diffusion with Planned Denoising"
BioGeek/denovo_benchmarks
BioGeek/Drop7Gym
Student Project: Openai Gym of Drop7
BioGeek/google-io-extended-cpt-2024
Repository for presentation: Infrastructure as Code: Developer's Secret Weapon at Google IO Extended Cape Town 2024
BioGeek/InstaGeo-E2E-Geospatial-ML
A python package for end-to-end geospatial machine learning using multispectral earth observation data such as NASA HLS.
BioGeek/memento
Official Implementation of Memento
BioGeek/mkdocs-deploy-gh-pages
GitHub Action to deploy an MkDocs site to GitHub Pages
BioGeek/MSCI
BioGeek/MSEntropy
Spectral entropy for mass spectrometry data.
BioGeek/multi_gpu_training
BioGeek/orthrus_metaproteomics
Transformer-based de novo sequencing (InstaNovo & Casanovo) + database searching with rescoring (Sage & Mokapot) for metaproteomics datasets
BioGeek/protein-sequence-bfn
Supporting code for our paper "Protein Sequence Modelling with Bayesian Flow Networks"
BioGeek/protkit
A Unified Approach to Protein Engineering
BioGeek/rdvc-demo-project
BioGeek/smol-course
A course on aligning smol models.
BioGeek/Stoix
🏛️A research-friendly codebase for fast experimentation of single-agent reinforcement learning in JAX • End-to-End JAX RL
BioGeek/unyt
Handle, manipulate, and convert data with units in Python
BioGeek/z3alpha
Z3alpha: synthesizes efficient Z3 strategies tailored to your problem set! Repo for the IJCAI'24 paper: Layered and Staged Monte Carlo Tree Search for SMT Strategy Synthesis.