Shitong Luo

bioicons. A library of free open source icons for science illustrations in biology and chemistry

One-Core-API-Binaries. Batchfile

superpowers-ml. Skills that make your AI agent do ML research like a skeptical scientist, not a hype machine.

patinae. A fast, programmable molecular viewer for research, scripting, and the web

paperclip. The open-source app everyone uses to manage agents at work

xyzrender. Publication-quality molecular graphics.

prexsyn-engine-feedstock. A conda-smithy repository for prexsyn-engine.

Mole. 🐹 Clean, uninstall, analyze, optimize, and monitor your Mac from the terminal.

turm. TUI for the Slurm Workload Manager

openfold-3. A fully open source biomolecular structure prediction model based on AlphaFold3

submitit. Python 3.8+ toolbox for submitting jobs to Slurm

86Box. Emulator of x86-based machines.

gpt-oss. gpt-oss-120b and gpt-oss-20b are two open-weight language models by OpenAI

indicators. Activity Indicators for Modern C++

PaperMemory. Your browser's reference manager: automatic paper detection (Arxiv, OpenReview & more), publication venue matching and code repository discovery! Also enhances ArXiv: BibTex citation, Markdown link, direct download and more!

blue95. A desktop for your childhood home's computer room

xpipe. Access your entire server infrastructure from your local desktop

xyflow. React Flow | Svelte Flow - Powerful open source libraries for building node-based UIs with React (https://reactflow.dev) or Svelte (https://svelteflow.dev). Ready out-of-the-box and infinitely customizable.

TinyZero. Minimal reproduction of DeepSeek R1-Zero

DeepSeek-R1.

deck.gl. WebGL2 powered visualization framework

clay. High performance UI layout library in C.

MiniRealisticAirways. Realistic Mod for Mini Airways

98.css. A design system for building faithful recreations of old UIs

roboto-2. The Roboto family of fonts

plex. The package of IBM’s typeface, IBM Plex.

synformer. Python

zotero-style. Ethereal Style for Zotero

Chartero. Chart in Zotero

awesome-identicons. A curated list of "Visual Hashs" (Identicon, Avatar, Fractal, RandomArt and general Hash Visualization)

htmx. </> htmx - high power tools for HTML

plinder. Protein Ligand INteraction Dataset and Evaluation Resource

build-your-own-x. Master programming by recreating your favorite technologies from scratch.

esm. Jupyter Notebook

3dcitydb. 3D City Database - The Open Source CityGML Database

excalidraw. Virtual whiteboard for sketching hand-drawn like diagrams

puter. 🌐 The Internet Computer! Free, Open-Source, and Self-Hostable.

github-readme-stats. :zap: Dynamically generated stats for your github readmes

tauri. Build smaller, faster, and more secure desktop and mobile applications with a web frontend.

nerfstudio. A collaboration friendly studio for NeRFs

tldraw. Build infinite canvas apps in React with the tldraw SDK. World's best, top-most agent recommended #1 five star SDK.

awesome-rust. A curated list of Rust code and resources.

tch-rs. Rust bindings for the C++ api of PyTorch.

hdb3d-data. 3D city model of Singapore public housing (HDB) buildings

awesome-citygml. The ultimate list of open data semantic 3D city models

techniques. Techniques for deep learning with satellite & aerial imagery

tinygrad. You like pytorch? You like micrograd? You love tinygrad! ❤️

LlamaFactory. Unified Efficient Fine-Tuning of 100+ LLMs & VLMs (ACL 2024)

tabby. Self-hosted AI coding assistant

scalar-fields. Equivariant Scalar Fields for Molecular Docking with Fast Fourier Transforms

lobehub. 🤯 LobeHub is your Chief Agent Operator, organizing your agents into 7×24 operations by hiring, scheduling, and reporting on your entire AI team.

mlx. MLX: An array framework for Apple silicon

Modern-CPP-Programming. Modern C++ Programming Course (C++03/11/14/17/20/23/26)

enantiomer-differentiation-gnn. Explore current geometric GNNs' ability to differentiate enantiomer pairs ⌬

ML-For-Beginners. 12 weeks, 26 lessons, 52 quizzes, classic Machine Learning for all

sl. SL(1): Cure your bad habit of mistyping

asciiquarium. Enjoy the mysteries of the sea from the safety of your own terminal!

CppCon2014. Speaker materials from CppCon 2014

system-design-101. Explain complex systems using visuals and simple terms. Help you prepare for system design interviews.

ruffle. A Flash Player emulator written in Rust

pytest-benchmark. pytest fixture for benchmarking code

docker-volume-snapshot. Docker volume backup or snapshot utility command

dvc. 🦉 Data Versioning and ML Experiments

abmap. Protein language model customized for antibodies

gpt4all. GPT4All: Run Local LLMs on Any Device. Open-source and available for commercial use.

zotero-gpt. GPT Meet Zotero.

n8n. Fair-code workflow automation platform with native AI capabilities. Combine visual building with custom code, self-host or cloud, 400+ integrations.

best-of-python-dev. 🏆 A ranked list of awesome python developer tools and libraries. Updated weekly.

harness. Harness Open Source is an end-to-end developer platform with Source Control Management, CI/CD Pipelines, Hosted Developer Environments, and Artifact Registries.

Fragmenstein. Merging, linking and placing compounds by stitching bound compounds together like a reanimated corpse

propka. PROPKA predicts the pKa values of ionizable groups in proteins and protein-ligand complexes based in the 3D structure.

celery. Distributed Task Queue (development branch)

airflow. Apache Airflow - A platform to programmatically author, schedule, and monitor workflows

mypy. Optional static typing for Python

targetdiff. The official implementation of 3D Equivariant Diffusion for Target-Aware Molecule Generation and Affinity Prediction (ICLR 2023)

line_profiler. Line-by-line profiling for Python

GeoLDM. Geometric Latent Diffusion Models for 3D Molecule Generation

llama. Inference code for Llama models

tvm. Open Machine Learning Compiler Framework

snakemake. This is the development home of the workflow management system Snakemake. For general information, see

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carbonyl. Chromium running inside your terminal

TileDB. The Universal Storage Engine

torchgeo. TorchGeo: datasets, samplers, transforms, and pre-trained models for geospatial data

tensordict. TensorDict is a pytorch dedicated tensor container.

heti. 赫蹏（hètí）是专为中文内容展示设计的排版样式增强。它基于通行的中文排版规范而来，可以为网站的读者带来更好的文章阅读体验。

codon. A high-performance, zero-overhead, extensible Python compiler with built-in NumPy support

py-spy. Sampling profiler for Python programs

lovely-tensors. Tensors, for human consumption

ChineseBQB. 🇨🇳 Chinese sticker pack,More joy / 表情包的博物馆, Github最有毒的仓库, 中国表情包大集合, 聚欢乐~

dotbot. A tool that bootstraps your dotfiles ⚡️

chezmoi. Manage your dotfiles across multiple diverse machines, securely.

huginn. Create agents that monitor and act on your behalf. Your agents are standing by!

optree. OpTree: Optimized PyTree Utilities

al-folio. A beautiful, simple, clean, and responsive Jekyll theme for academics

arrow. Apache Arrow is the universal columnar format and multi-language toolbox for fast data interchange and in-memory analytics

asciinema. Terminal session recorder, streamer and player 📹

CommandlineConfig. A library for users to write (experiment in research) configurations in Python Dict or JSON format, read and write parameter value via dot . in code, while can read parameters from the command line to modify values. 一个供用户以Python Dict或JSON格式编写（科研中实验）配置的库，在代码中用点.读写属性，同时可以从命令行中读取参数配置并修改参数值。

st-speckmol. Streamlit Component for creating Speck molecular structures within Streamlit Web app.

streamlit-aggrid. Implementation of Ag-Grid component for Streamlit

mlops-course. Learn how to design, develop, deploy and iterate on production-grade ML applications.

instill-core. 🔮 Instill Core is a full-stack AI infrastructure tool for data, model and pipeline orchestration, designed to streamline every aspect of building versatile AI-first applications

geomstats. Computations and statistics on manifolds with geometric structures.

obsidian-day-planner. An Obsidian plugin for day planning with a clean UI and a simple task format

alpa. Training and serving large-scale neural networks with auto parallelization.

latexify_py. A library to generate LaTeX expression from Python code.

stmol. This is the repository for the Stmol project, a Streamlit component that uses py3Dmol to render molecules.

Poisson_flow. Code for NeurIPS 2022 Paper, "Poisson Flow Generative Models" (PFGM)

RoseTTAFold2NA. RoseTTAFold2 protein/nucleic acid complex prediction

gdu. Fast disk usage analyzer with console interface written in Go

MolecularNodes. Toolbox for molecular animations in Blender, powered by Geometry Nodes.

earlyoom. earlyoom - Early OOM Daemon for Linux

milvus. Milvus is a high-performance, cloud-native vector database built for scalable vector ANN search

rifdock. Rifdock Library for Conformational Search

evotorch. Advanced evolutionary computation library built directly on top of PyTorch, created at NNAISENSE.

streamlit. Streamlit — A faster way to build and share data apps.

folding_tools. A collection of *fold* tools

lsyncd. Lsyncd (Live Syncing Daemon) synchronizes local directories with remote targets

syncthing. Open Source Continuous File Synchronization

visidata. A terminal spreadsheet multitool for discovering and arranging data

bullet. 🚅 Interactive prompts made simple. Build a prompt like stacking blocks.

pytermgui. Python TUI framework with mouse support, modular widget system, customizable and rapid terminal markup language and more!

textual. The lean application framework for Python. Build sophisticated user interfaces with a simple Python API. Run your apps in the terminal and a web browser.

QuickLookProtein. QuickLookProtein is a macOS Quick Look extension to preview protein/3D structure files (PDB, SDF, CIF).

xterm.js. A terminal for the web

tuixue.online-visa. https://tuixue.online/visa/ A Real-time Display of U.S. Visa Appointment Status Website 预约美帝签证各个签证处最早时间的爬虫

vector-quantize-pytorch. Vector (and Scalar) Quantization, in Pytorch

practical_cheminformatics_tutorials. Practical Cheminformatics Tutorials

logomaker. Software for the visualization of sequence-function relationships

OmegaFold. OmegaFold Release Code

websockets. Library for building WebSocket servers and clients in Python

carbon-lang. Carbon Language's main repository: documents, design, implementation, and related tools. (NOTE: Carbon Language is experimental; see README)

wttr.in. :partly_sunny: The right way to check the weather

adjustText. A small library for automatical adjustment of text position in matplotlib plots to minimize overlaps.

nerd-fonts. Iconic font aggregator, collection, & patcher. 3,600+ icons, 50+ patched fonts: Hack, Source Code Pro, more. Glyph collections: Font Awesome, Material Design Icons, Octicons, & more

openfold. Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

rebiber. A simple tool to update bib entries with their official information (e.g., DBLP or the ACL anthology).

NumCpp. C++ implementation of the Python Numpy library

HumanSystemOptimization. 健康学习到150岁 - 人体系统调优不完全指南

Pocket2Mol. Pocket2Mol: Efficient Molecular Sampling Based on 3D Protein Pockets

cook. 🍲 好的，今天我们来做菜！OK, Let's Cook!

xonsh. 🐚 Python-powered shell. Full-featured, cross-platform and AI-friendly.

HowToLiveLonger. 程序员延寿指南 | A programmer's guide to live longer

tiny-cuda-nn. Lightning fast C++/CUDA neural network framework

AdTree. Accurate, detailed, and automatic modelling of laser-scanned trees

deepdiff. DeepDiff: Deep Difference and search of any Python object/data. DeepHash: Hash of any object based on its contents. Delta: Use deltas to reconstruct objects by adding deltas together.

pyrender. Easy-to-use glTF 2.0-compliant OpenGL renderer for visualization of 3D scenes.

mhctools. Python interface to running command-line and web-based MHC binding predictors

awesome-mac.  This project is dedicated to collecting high-quality macOS software and organizing them systematically by different categories for easy search and use.

amortized-optimization-tutorial. Tutorial on amortized optimization for learning to optimize over continuous domains

gpu.js. GPU Accelerated JavaScript

confopt_official. The official implementation of Energy-Inspired Molecular Conformation Optimization (ICLR 2022)

HowToCook. Programmer's guide about how to cook at home.

pdb2pqr. PDB2PQR - determining titration states, adding missing atoms, and assigning charges/radii to biomolecules.

IconQA. Data and code for NeurIPS 2021 Paper "IconQA: A New Benchmark for Abstract Diagram Understanding and Visual Language Reasoning".

RefineGNN. Python

imbalanced-dataset-sampler. A (PyTorch) imbalanced dataset sampler for oversampling low frequent classes and undersampling high frequent ones.

papers-we-love. Papers from the computer science community to read and discuss.

instant-ngp. Instant neural graphics primitives: lightning fast NeRF and more

waffle. :maple_leaf: Make waffle (square pie) charts in R

npy-may-cry. 女朋友看了都哭了

aioway. AI on the way. An auto deep learning pipe dream. An RDBMS approach to deep learning. Declarative, explainable, scalable, optimizable, easy to deploy, all that good stuff.

NFGP. Pytorch implementation of NeurIPS 2021 paper: Geometry Processing with Neural Fields.

DouZero. [ICML 2021] DouZero: Mastering DouDizhu with Self-Play Deep Reinforcement Learning | 斗地主AI

XVFI. [ICCV 2021, Oral 3%] Official repository of XVFI

functorch. functorch is JAX-like composable function transforms for PyTorch.

arxiv-vanity. Renders papers from arXiv as responsive web pages so you don't have to squint at a PDF.

optuna. A hyperparameter optimization framework

lifeRestart. やり直すんだ。そして、次はうまくやる。

x-transformers. A concise but complete full-attention transformer with a set of promising experimental features from various papers

gdb-dashboard. Modular visual interface for GDB in Python

BSDGames. Text based games from Debian - bsdgames package.

DALI. A GPU-accelerated library containing highly optimized building blocks and an execution engine for data processing to accelerate deep learning training and inference applications.

torchdrug. A powerful and flexible machine learning platform for drug discovery

MMseqs2. MMseqs2: ultra fast and sensitive search and clustering suite

blender-scripting. Introduction to blender scripting

torchshard. Slicing a PyTorch Tensor Into Parallel Shards

differentiable_sorting. Differentiable bitonic sorting

joblib. Computing with Python functions.

Machine-learning-for-proteins. Listing of papers about machine learning for proteins.

arxiv-latex-cleaner. arXiv LaTeX Cleaner: Easily clean the LaTeX code of your paper to submit to arXiv

clifford. Geometric Algebra for Python

hh-suite. Remote protein homology detection suite.

typora-latex-theme. 将Typora伪装成LaTeX的中文样式主题，本科生轻量级课程论文撰写的好帮手。This is a theme disguising Typora into Chinese LaTeX style.

Fusion360GalleryDataset. Data, tools, and documentation of the Fusion 360 Gallery Dataset

tfrecord. Standalone TFRecord reader/writer with PyTorch data loaders

pygl. PyGL: statistical field theory in Python. github.com/rajeshrinet/pygl

esm. Evolutionary Scale Modeling (esm): Pretrained language models for proteins

probreg. Python package for point cloud registration using probabilistic model (Coherent Point Drift, GMMReg, SVR, GMMTree, FilterReg, Bayesian CPD)

ConfVAE-ICML21. An End-to-End Framework for Molecular Conformation Generation via Bilevel Programming (ICML'21)

Graphormer. Graphormer is a general-purpose deep learning backbone for molecular modeling.

e2cnn. E(2)-Equivariant CNNs Library for Pytorch

ray. Ray is an AI compute engine. Ray consists of a core distributed runtime and a set of AI Libraries for accelerating ML workloads.

deepchem. Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology

Pymol-script-repo. Collected scripts for Pymol

CVPR-2021-Papers.

transfer.sh. Easy and fast file sharing from the command-line.

PolyFit. Polygonal Surface Reconstruction from Point Clouds (C++ & Python)

nord. An arctic, north-bluish color palette.

indigo-bondorder. Bondorder and formal charge determination for molecules