psturmfels

psturmfels's Stars

• barborico/recipes

  A place to accumulate, tweak, and share favorite recipes.

  51

• lucidrains/alphafold3-pytorch

  Implementation of Alphafold 3 in Pytorch

  Language:Python1.2k140

• duerrsimon/bioicons

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

  Language:Vue1.4k75

• maabuu/posebusters

  Plausibility checks for generated molecule poses.

  Language:Python22214

• NVlabs/edm

  Elucidating the Design Space of Diffusion-Based Generative Models (EDM)

  Language:Python1.4k143

• lucidrains/equiformer-pytorch

  Implementation of the Equiformer, SE3/E3 equivariant attention network that reaches new SOTA, and adopted for use by EquiFold for protein folding

  Language:Python24422

• psturmfels/Avalanche

  Simple vertical-scrolling tap-jump game

  Language:Swift2

• PDB-REDO/alphafill

  AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the models can be more easily appreciated in terms of function and structure integrity.

  Language:C++9018

• biolists/folding_tools

  A collection of *fold* tools

  28732

• oriedita/oriedita

  Oriedita (fork of Orihime) is an origami crease pattern editor and folding simulator.

  Language:Java7919

• facebookresearch/fairseq

  Facebook AI Research Sequence-to-Sequence Toolkit written in Python.

  Language:Python30.5k6.4k

• soedinglab/MMseqs2

  MMseqs2: ultra fast and sensitive search and clustering suite

  Language:C1.4k194

• gnusenpai/colemakclub

  Fork of colemak.academy

  Language:JavaScript13852

• bbbbbrie/awesome-kinesis

  Unofficial curated list of resources and references for Kinesis keyboard enthusiasts

  28014

• farmergreg/kinesis-advantage-2

  Keyboard layouts and macros for the Kinesis Advantage 2 keyboard.

  8820

• facebookresearch/faiss

  A library for efficient similarity search and clustering of dense vectors.

  Language:C++31.3k3.6k

• KevinMusgrave/pytorch-metric-learning

  The easiest way to use deep metric learning in your application. Modular, flexible, and extensible. Written in PyTorch.

  Language:Python6k658

• Rostlab/EAT

  Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer annotations from a set of labeled lookup protein embeddings to query protein embedding.

  Language:Python287

• ermongroup/cs228-notes

  Course notes for CS228: Probabilistic Graphical Models.

  Language:SCSS1.9k471

• hiranumn/DeepAccNet

  Pytorch/Python3 implementation of DeepAccNet, protein model accuracy evaluator.

  Language:Python7811

• FunctionLab/selene

  a framework for training sequence-level deep learning networks

  Language:Jupyter Notebook37389

• suinleelab/cxr_adv

  Repository for the paper "An Adversarial Approach for the Robust Classification of Pneumonia from Chest Radiographs"

  Language:Python185

• suinleelab/DeepProfile

  DeepProfile framework, which learns a variational autoencoder (VAE) network from a vast quantity of publicly available gene expression samples and uses the learned network to encode a low-dimensional representation (LDR) for predicting complex phenotypes

  Language:Python196

• hovancik/stretchly

  The break time reminder app

  Language:JavaScript4.6k443

• paolobif/Worm-Yolo

  Implementation of yolov3 on C.elegans

  Language:Jupyter Notebook1

• agemagician/ProtTrans

  ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.

  Language:Jupyter Notebook1.1k153

• yangkky/Machine-learning-for-proteins

  Listing of papers about machine learning for proteins.

  1.5k203

• songlab-cal/tape

  Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

  Language:Python661129

• jason718/awesome-self-supervised-learning

  A curated list of awesome self-supervised methods

  6.2k828

• suinleelab/path_explain

  A repository for explaining feature attributions and feature interactions in deep neural networks.

  Language:Jupyter Notebook18528