a C++ API of htslib to be easily integrated and safely used. More importantly, it can be callled seamlessly in R/Python/Julia etc.

MMseqs2: ultra fast and sensitive search and clustering suite

Learn to analyse genomics data from cancer samples with hands-on practical exercises in mutation calling, driver gene identification, mutational signature analysis and RNA deconvolution.

BioNeMo Framework: For building and adapting AI models in drug discovery at scale

LLM training in simple, raw C/CUDA

PDBFixer fixes problems in PDB files

Open source code for AlphaFold.

Mamba SSM architecture

A set of examples around pytorch in Vision, Text, Reinforcement Learning, etc.

1️⃣🐝🏎️ The One Billion Row Challenge -- A fun exploration of how quickly 1B rows from a text file can be aggregated with Java

Pipeline to calculate de novo mutation rates from parent-offspring trios

Official code repository for GATK versions 4 and up

A script to calculate estimated cost of a Cromwell workflow on Google Cloud

Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)

Copy number caller for long read data including SNV utilization

Code for the ProteinMPNN paper

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

Cross-platform C++11 header-only library for memory mapped file IO