shaunmk

shaunmk's Stars

• zrqiao/NeuralPLexer

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

  Language:Jupyter Notebook23364

• biolists/folding_tools

  A collection of *fold* tools

  27530

• idiap/fast-transformers

  Pytorch library for fast transformer implementations

  Language:Python1.6k172

• kaiyuyue/torchshard

  Slicing a PyTorch Tensor Into Parallel Shards

  Language:Python29315

• dzarmola/knot_pull

  Python module for knot-like structure detection in biological molecules

  Language:Python83

• aqlaboratory/openfold

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

  Language:Python2.6k485

• NVIDIA/DeepLearningExamples

  State-of-the-Art Deep Learning scripts organized by models - easy to train and deploy with reproducible accuracy and performance on enterprise-grade infrastructure.

  Language:Jupyter Notebook13k3.1k

• sokrypton/ColabFold

  Making Protein folding accessible to all!

  Language:Jupyter Notebook1.8k466

• Chris911/iStats

  Ruby gem for your mac stats

  Language:Ruby2.4k170

• wwsmiff/progress_bar_cpp

  Language:C++451

• sdushantha/tmpsms

  A temporary SMS utility right from your terminal written in POSIX sh

  Language:Shell1k45

• pymodproject/pymod

  PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.

  Language:Python7118

• rsalmei/alive-progress

  A new kind of Progress Bar, with real-time throughput, ETA, and very cool animations!

  Language:Python5.3k199

• sokrypton/e2e

  3

• baldassarreFe/torchgraphs

  A PyTorch library for Graph Convolutional Networks.

  Language:Python51

• mathbio-nimr-mrc-ac-uk/SAP

  SAP: pairwise structure alignment using double-dynamic programming (by Willie Taylor)

  Language:C31

• biocryst/biozernike

  Protein structure descriptors and alignment based on 3D Zernike moments.

  Language:Java3211

• RCL-lab/protein-structure-conversion

  Language:C++72

• mmagnus/emacs-pdb-mode

  pdb-mode is an emacs-lisp minor mode for Emacs to perform a number of useful editing functions on Protein DataBank (PDB) formatted files. XEmacs and/or GNU Emacs are available for most computing platforms.

  Language:Emacs Lisp147

• Lightning-AI/pytorch-lightning

  Pretrain, finetune and deploy AI models on multiple GPUs, TPUs with zero code changes.

  Language:Python27.6k3.3k

• guyleonard/get_jgi_genomes

  A quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.

  Language:Perl275

• glarue/jgi-query

  A simple command-line tool to download data from Joint Genome Institute databases

  Language:Python4617

• koalaman/shellcheck

  ShellCheck, a static analysis tool for shell scripts

  Language:Haskell35.6k1.7k

• tkipf/gae

  Implementation of Graph Auto-Encoders in TensorFlow

  Language:Python1.6k352

• ethanfetaya/NRI

  Neural relational inference for interacting systems - pytorch

  Language:Python732157

• 3b1b/manim

  Animation engine for explanatory math videos

  Language:Python60.9k5.7k

• ccsb-scripps/Illustrate

  Biomolecular Illustration Tool

  Language:Fortran10522

• tkipf/pygcn

  Graph Convolutional Networks in PyTorch

  Language:Python5.1k1.2k

• marcan/takeover.sh

  Wipe and reinstall a running Linux system via SSH, without rebooting. You know you want to.

  Language:Shell7.1k354

• haddocking/pdb-tools

  A dependency-free cross-platform swiss army knife for PDB files.

  Language:Python378113