ANaka

SWE-agent

SWE-agent takes a GitHub issue and tries to automatically fix it, using GPT-4, or your LM of choice. It can also be employed for offensive cybersecurity or competitive coding challenges.

Jaiqu

Automatically reformat any JSON into any schema with AI

dessins_geometriques_et_artistiques

Recode of book "Dessins géométriques et artistiques avec votre micro-ordinateur" (1985) with p5js

ESTAG

The source code of "Equivariant Spatio-Temporal Attentive Graph Networks to Simulate Physical Dynamics"

awesome-protein-representation-learning

Awesome Protein Representation Learning

awesome-AI-based-protein-design

A collection of research papers for AI-based protein design

TaxDiff

The official code for "TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation"

metl-pretrained

Pretrained METL models with minimal dependencies

metl

Mutational Effect Transfer Learning (METL) framework for pretraining and finetuning biophysics-informed protein language models

protkit

A Unified Approach to Protein Engineering

GDFold2

bio_embeddings

Get protein embeddings from protein sequences

Awesome-Biomolecule-Language-Cross-Modeling

Awesome-Biomolecule-Language-Cross-Modeling: a curated list of resources for paper "Leveraging Biomolecule and Natural Language through Multi-Modal Learning: A Survey"

BioT5

BioT5 (EMNLP 2023) and BioT5+ (ACL 2024 Findings)

Prot2Text

MoleculeSTM

Multi-modal Molecule Structure-text Model for Text-based Editing and Retrieval, Nat Mach Intell 2023 (https://www.nature.com/articles/s42256-023-00759-6)

af2seq

RoseTTAFold-All-Atom

rf_diffusion_all_atom

Public RFDiffusionAA repo

poyo

Official Implementation of POYO-1 https://poyo-brain.github.io/

ptm-mamba

SimCSE

[EMNLP 2021] SimCSE: Simple Contrastive Learning of Sentence Embeddings https://arxiv.org/abs/2104.08821

SPECTRA

Spectral Framework For AI Model Evaluation

protein-sequence-models

TOTEM

The official code 👩‍💻 for - TOTEM: TOkenized Time Series EMbeddings for General Time Series Analysis

visual-physiology-opsin-db

A database of opsin genotype-phenotype data and machine-learning models trained to predict opsin phenotypes.

multiflow

SaProt

[ICLR'24 spotlight] Saprot: Protein Language Model with Structural Alphabet

regression-transformer

Regression Transformer (2023; Nature Machine Intelligence)

UCVME

AAAI 2023: Semi-Supervised Deep Regression with Uncertainty Consistency and Variational Model Ensembling via Bayesian Neural Networks