A PyTorch Basecaller for Oxford Nanopore Reads

Scripts for the interpretation of AlphaPulldown result

Bilingual Language Model for Protein Sequence and Structure

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

A (user-)friendly wrapper to nvdia-smi

Materials for MLE Days and Summer School 2022 at TUHH

Repository for the hands-on part of the Use Case DESY II session at MLE School 2022

Scripts for filtering/analyzing timecourse RNAseq

R code for Manifold Regularized Causal Learning (MRCL) and scripts to run the analysis presented in Hill*, Oates*, Blythe & Mukherjee (2019).

Shared repository for open-sourced projects from the Google AI Language team.

Optimizing AlphaFold Training and Inference on GPU Clusters

Implementation of Graph Auto-Encoders in TensorFlow

A project for exploring differentially active signaling paths related to proteomics datasets

Practical for "Systems biology: From large datasets to biological insight 2021" course at EMBL-EBI

IntAct Database Web Application

Session "Supervised Machine Learning" as part of the EBI cours "Systems Biology - From large data sets to biological insight" 2021

Orientation of the protein-protein interaction network using network diffusion techniques

Graph theory (network) library for visualisation and analysis

Out of date. Refer to https://blog.js.cytoscape.org/tutorials/

A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0

EPFL Machine Learning Course, Fall 2025

OWLTools

Course materials for the Data Science Specialization: https://www.coursera.org/specialization/jhudatascience/1

Scripts written for my Bioinformatics-along on YouTube: https://www.youtube.com/playlist?list=PLzfP3sCXUnxEu5S9oXni1zmc1sjYmT1L9

Official repo for the #tidytuesday project

DIA-NN - a universal automated software suite for DIA proteomics data analysis.