sirius777coder

transformers

🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

frp

A fast reverse proxy to help you expose a local server behind a NAT or firewall to the internet.

nanoGPT

The simplest, fastest repository for training/finetuning medium-sized GPTs.

DeepSpeed

DeepSpeed is a deep learning optimization library that makes distributed training and inference easy, efficient, and effective.

tiktoken

tiktoken is a fast BPE tokeniser for use with OpenAI's models.

micrograd

A tiny scalar-valued autograd engine and a neural net library on top of it with PyTorch-like API

DiT

Official PyTorch Implementation of "Scalable Diffusion Models with Transformers"

gemma_pytorch

The official PyTorch implementation of Google's Gemma models

ng-video-lecture

makemore

An autoregressive character-level language model for making more things

evo

Biological foundation modeling from molecular to genome scale

stripedhyena

Repository for StripedHyena, a state-of-the-art beyond Transformer architecture

NeuralPLexer

NeuralPLexer: State-specific protein-ligand complex structure prediction with a multi-scale deep generative model

THU-Mathematics-Books

清华数学系部分课程教材及参考资料，自用，侵删

LigandMPNN

mlm-pytorch

An implementation of masked language modeling for Pytorch, made as concise and simple as possible

genie

De Novo Protein Design by Equivariantly Diffusing Oriented Residue Clouds

proteinfer

Deep networks for protein functional inference

ChatMol

ChatGPT in PyMOL now!

freesasa

C-library for calculating Solvent Accessible Surface Areas

Str2Str

Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)

TaxDiff

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

GCPNet

A PyTorch implementation of Geometry-Complete SE(3)-Equivariant Perceptron Networks (GCPNets)

GPD

Graphormer Based Protein Sequence Design

gemma-chinese

Finetune Gemma for Chinese

RhoDesign

RhoDesign is a structure-to-sequence model for RNA design.

code-for-TurboPETase

code for TubroPETase paper

QSproteome_protocol

contains all the necessary script and data to calculate everything from input pdb model + json file to dimer probability

Implicit-Membrane-Energy-Function-Benchmark

This is a set of scientific benchmark tests for evaluating membrane protein modeling energy functions. The test probe an energy function's ability to capture membrane protein orientation, stability, sequence, and structure. The methods are described in detail in the citations below.

zurplot

Functions for creating figures