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Name: Benbo Gao
Type: User
Company: Biogen Inc
Name: Benbo Gao
Type: User
Company: Biogen Inc
Open source code for AlphaFold.
Structural space exploration of AlphaFold DB
Data for the comparison of AlphaFold2 predictions with the SwissModel repository
The ATOM Modeling PipeLine (AMPL) is an open-source, modular, extensible software pipeline for building and sharing models to advance in silico drug discovery.
Get protein embeddings from protein sequences
Official git repository for Biopython (originally converted from CVS)
Protein cavity identification and automatic subpocket decomposition
ChemMine Tools: open source web framework for small molecule analysis
:bar_chart: A universal enrichment tool for interpreting omics data
The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell level. CPA performs OOD predictions of unseen combinations of drugs, learns interpretable embeddings, estimates dose-response curves, and provides uncertainty estimates.
Integrating chemoproteomics, protein structures, and functional annotations to understand the role of cysteines in the human proteome.
Molecular Manipulation Made Easy.
A convolutional neural network for classifying binding pockets based on spatial and chemical information extracted from the pockets.
A collection of various deep learning architectures, models, and tips
DeeplyTough: Learning Structural Comparison of Protein Binding Sites
Ligand Binding Site detection using Deep Learning
Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
Dose Response for Omics
An exploration strategy improves the diversity of de novo drug design using deep reinforcement learning
EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
A collection of *fold* tools
fpocket is a very fast open source protein pocket detection algorithm based on Voronoi tessellation. The platform is suited for the scientific community willing to develop new scoring functions and extract pocket descriptors on a large scale level. fpocket is distributed as free open source software. If you are interested in integrating fpocket in an industrial setting and require official support, please contact Discngine (www.discngine.com).
A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.
Protein Graph Library
HTMD: Programming Environment for Molecular Discovery
A declarative, efficient, and flexible JavaScript library for building user interfaces.
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google ❤️ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.