Lood's repositories
DeepSequence
A generative latent variable model for biological sequence families.
esm
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
gat-pytorch
Reproducing Graph Attention Networks by Velickovic et al.
hypothesis
Hypothesis is a powerful, flexible, and easy to use library for property-based testing.
ProteinGym
Official repository for the ProteinGym benchmarks
jupyter-o2
Run Jupyter on Orchestra 2
just-pandas-things
An ongoing list of pandas quirks
lightning-bolts
Toolbox of models, callbacks, and datasets for AI/ML researchers.
lightning-hydra-template
PyTorch Lightning + Hydra. A very user-friendly template for rapid, scalable and reproducible ML experimentation with best practices. ⚡🔥⚡
loodvn.github.io
Lood van Niekerk website
metrics
Machine learning metrics for distributed, scalable PyTorch applications.
pandas
Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more
pexpect
A Python module for controlling interactive programs in a pseudo-terminal
pytorch
Tensors and Dynamic neural networks in Python with strong GPU acceleration
sagemaker-containers
This support code is used for making machine learning frameworks (e.g. MXNet, TensorFlow) run on Amazon SageMaker.
tensorboard
TensorFlow's Visualization Toolkit
tensorflow
An Open Source Machine Learning Framework for Everyone
Tranception
Official repository for the paper "Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-time Retrieval"