RITA is a family of autoregressive protein models, developed by LightOn in collaboration with the OATML group at Oxford and the Debora Marks Lab at Harvard.

Overview

RITA: a Study on Scaling Up Generative Protein Sequence Models

GitHub license Twitter

RITA is a family of autoregressive protein models, developed by a collaboration of Lighton, the OATML group at Oxford, and the Debbie Marks Lab at Harvard.

Model #Params d_model layers lm loss uniref-100
Small 85M 768 12 2.31
Medium 300M 1024 24 2.01
Large 680M 1536 24 1.82
XLarge 1.2B 2048 24 1.70

Results

For full results see our preprint: https://arxiv.org/abs/2205.05789

Usage

Instantiate a model like so:

from transformers import AutoModel, AutoModelForCausalLM
model = AutoModelForCausalLM.from_pretrained("lightonai/RITA_s, trust_remote_code=True")
tokenizer = AutoTokenizer.from_pretrained("lightonai/RITA_s")

for generation we support pipelines:

from transformers import pipeline
rita_gen = pipeline('text-generation', model=model, tokenizer=tokenizer)
sequences = rita_gen("MAB", max_length=20, do_sample=True, top_k=950, repetition_penalty=1.2, 
                     num_return_sequences=2, eos_token_id=2)
for seq in sequences:
    print(f"seq: {seq['generated_text'].replace(' ', '')}")

Or see example.py

How to cite

@article{hesslow2022rita,
  title={RITA: a Study on Scaling Up Generative Protein Sequence Models},
  author={Hesslow, Daniel and Zanichelli, Niccol{\'o} and Notin, Pascal and Poli, Iacopo and Marks, Debora},
  journal={arXiv preprint arXiv:2205.05789},
  year={2022}
}
Owner
LightOn
At LightOn, we unlock Extreme-Scale Machine Intelligence. Most repos are focused on the use of photonic hardware. LightOnMuse connects to foundation models
LightOn
PyTorch implementation of "Representing Shape Collections with Alignment-Aware Linear Models" paper.

deep-linear-shapes PyTorch implementation of "Representing Shape Collections with Alignment-Aware Linear Models" paper. If you find this code useful i

Romain Loiseau 27 Sep 24, 2022
Computationally efficient algorithm that identifies boundary points of a point cloud.

BoundaryTest Included are MATLAB and Python packages, each of which implement efficient algorithms for boundary detection and normal vector estimation

6 Dec 09, 2022
Project for music generation system based on object tracking and CGAN

Project for music generation system based on object tracking and CGAN The project was inspired by MIDINet: A Convolutional Generative Adversarial Netw

1 Nov 21, 2021
A resource for learning about ML, DL, PyTorch and TensorFlow. Feedback always appreciated :)

A resource for learning about ML, DL, PyTorch and TensorFlow. Feedback always appreciated :)

Aladdin Persson 4.7k Jan 08, 2023
This porject is intented to build the most accurate model for predicting the porbability of loan default

Estimating-Loan-Default-Probability IBA ML2 Mid-project / Kaggle Competition This porject is intented to build the most accurate model for predicting

Adil Gahramanov 1 Jan 24, 2022
Code for the AAAI 2022 paper "Zero-Shot Cross-Lingual Machine Reading Comprehension via Inter-Sentence Dependency Graph".

multilingual-mrc-isdg Code for the AAAI 2022 paper "Zero-Shot Cross-Lingual Machine Reading Comprehension via Inter-Sentence Dependency Graph". This r

Liyan 5 Dec 07, 2022
View model summaries in PyTorch!

torchinfo (formerly torch-summary) Torchinfo provides information complementary to what is provided by print(your_model) in PyTorch, similar to Tensor

Tyler Yep 1.5k Jan 05, 2023
PyTorch and Tensorflow functional model definitions

functional-zoo Model definitions and pretrained weights for PyTorch and Tensorflow PyTorch, unlike lua torch, has autograd in it's core, so using modu

Sergey Zagoruyko 590 Dec 22, 2022
Official implementation of "Learning to Discover Cross-Domain Relations with Generative Adversarial Networks"

DiscoGAN Official PyTorch implementation of Learning to Discover Cross-Domain Relations with Generative Adversarial Networks. Prerequisites Python 2.7

SK T-Brain 754 Dec 29, 2022
NCNN implementation of Real-ESRGAN. Real-ESRGAN aims at developing Practical Algorithms for General Image Restoration.

NCNN implementation of Real-ESRGAN. Real-ESRGAN aims at developing Practical Algorithms for General Image Restoration.

Xintao 593 Jan 03, 2023
[ICCV 2021 Oral] Deep Evidential Action Recognition

DEAR (Deep Evidential Action Recognition) Project | Paper & Supp Wentao Bao, Qi Yu, Yu Kong International Conference on Computer Vision (ICCV Oral), 2

Wentao Bao 80 Jan 03, 2023
Cours d'Algorithmique Appliquée avec Python pour BTS SIO SISR

Course: Introduction to Applied Algorithms with Python (in French) This is the source code of the website for the Applied Algorithms with Python cours

Loic Yvonnet 0 Jan 27, 2022
Official PyTorch implementation of "Contrastive Learning from Extremely Augmented Skeleton Sequences for Self-supervised Action Recognition" in AAAI2022.

AimCLR This is an official PyTorch implementation of "Contrastive Learning from Extremely Augmented Skeleton Sequences for Self-supervised Action Reco

Gty 44 Dec 17, 2022
On Size-Oriented Long-Tailed Graph Classification of Graph Neural Networks

On Size-Oriented Long-Tailed Graph Classification of Graph Neural Networks We provide the code (in PyTorch) and datasets for our paper "On Size-Orient

Zemin Liu 4 Jun 18, 2022
Implementation of light baking system for ray tracing based on Activision's UberBake

Vulkan Light Bakary MSU Graphics Group Student's Diploma Project Treefonov Andrey [GitHub] [LinkedIn] Project Goal The goal of the project is to imple

Andrey Treefonov 7 Dec 27, 2022
Sandbox for training deep learning networks

Deep learning networks This repo is used to research convolutional networks primarily for computer vision tasks. For this purpose, the repo contains (

Oleg Sémery 2.7k Jan 01, 2023
Lightweight, Portable, Flexible Distributed/Mobile Deep Learning with Dynamic, Mutation-aware Dataflow Dep Scheduler; for Python, R, Julia, Scala, Go, Javascript and more

Apache MXNet (incubating) for Deep Learning Apache MXNet is a deep learning framework designed for both efficiency and flexibility. It allows you to m

The Apache Software Foundation 20.2k Jan 05, 2023
VOLO: Vision Outlooker for Visual Recognition

VOLO: Vision Outlooker for Visual Recognition, arxiv This is a PyTorch implementation of our paper. We present Vision Outlooker (VOLO). We show that o

Sea AI Lab 876 Dec 09, 2022
NovelD: A Simple yet Effective Exploration Criterion

NovelD: A Simple yet Effective Exploration Criterion Intro This is an implementation of the method proposed in NovelD: A Simple yet Effective Explorat

29 Dec 05, 2022
ByteTrack: Multi-Object Tracking by Associating Every Detection Box

ByteTrack ByteTrack is a simple, fast and strong multi-object tracker. ByteTrack: Multi-Object Tracking by Associating Every Detection Box Yifu Zhang,

Yifu Zhang 2.9k Jan 04, 2023