Antibody Numbering and Antigen Receptor ClassIfication

Code that walks through some use cases of the IEDB Query API (IQ-API)

HLA-II ligand predictor.

Making Protein Design accessible to all via Google Colab!

Lectures for course ML-protein-design

MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.

AbLang: A language model for antibodies

Peptide-MHC I binding affinity prediction

Github for files currently published in the IPD-IMGT/HLA FTP Directory hosted at the European Bioinformatics Institute

Fast and customizable framework for automatic ML model creation (AutoML)

Discovering Interpretable Features in Protein Language Models via Sparse Autoencoders

PyTorch tutorials and best practices.

Predictor of TCR-epitope interactions

Datasets from the IMMREP23 TCR specificity prediction challenge

TFold v1.0

A trainable PyTorch reproduction of AlphaFold 3.

Open source implementation of AlphaFold3

Run VSCode (codeserver) on Google Colab or Kaggle Notebooks

Make Zotero effective for us LaTeX holdouts

The official implementation of “Sophia: A Scalable Stochastic Second-order Optimizer for Language Model Pre-training”

DL course co-developed by YSDA, HSE and Skoltech

YSDA course in Natural Language Processing

A course in reinforcement learning in the wild

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

Oxford Nanopore Technologies fast5 API software

Efficient Deep Learning Systems course materials (HSE, YSDA)