jonathanking

Jonathan King's starred repositories

pytorch-lightning

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

Language:PythonApache-2.027578 247 6977

alphafold

Open source code for AlphaFold.

Language:PythonApache-2.012152 225 840

pyinstrument

🚴 Call stack profiler for Python. Shows you why your code is slow!

Language:PythonBSD-3-Clause6313 53 150

noise-suppression-for-voice

Noise suppression plugin based on Xiph's RNNoise

Language:C++GPL-3.04632 61 165

openfold

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

Language:PythonApache-2.02645 46 327

iGlance

Free system monitor for OSX and macOS. See all system information at a glance in the menu bar.

Language:SwiftGPL-3.02415 29 146

dill

serialize all of Python

Language:PythonNOASSERTION2215 24 501

ColabFold

Making Protein folding accessible to all!

Language:Jupyter NotebookMIT1811 45 535

openmm

OpenMM is a toolkit for molecular simulation using high performance GPU code.

Language:C++1439 82 2690

toolkit-for-ynab

A general purpose YNAB enhancing browser extension for Chrome and Firefox. Have it your way!

Language:TypeScriptMIT1418 57 2191

pathos

parallel graph management and execution in heterogeneous computing

Language:PythonNOASSERTION1366 35 264

submitit

Python 3.8+ toolbox for submitting jobs to Slurm

Language:PythonMIT1220 21 113

3Dmol.js

WebGL accelerated JavaScript molecular graphics library

Language:Jupyter NotebookNOASSERTION775 29 465

export-saved-reddit

Export saved Reddit posts into a HTML file for import into Google Chrome.

Language:PythonNOASSERTION429 19 30

ProDy

A Python Package for Protein Dynamics Analysis

Language:PythonNOASSERTION409 25 670

alfred-gcal

View Google Calendar events in Alfred

Language:GoMIT222 7 45

timeglass

Simple and unobtrusive menu bar timer for macOS.

Language:PythonMIT100 6 3

packstack

Packstack's web app user interface

Language:TypeScriptApache-2.086 4 61

alphafold2rave

Language:Jupyter NotebookMIT51 2 5

SQUID

Official implementation of "Equivariant Shape-Conditioned Generation of 3D Molecules for Ligand-Based Drug Design"

Language:PythonMIT49 1 11

QuickLookProtein

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

Language:SwiftNOASSERTION34 1 5

SolTranNet

Implementation of the SolTranNet tool utilizing the molecular transformer to predict aqueous solubility

Language:PythonApache-2.032 2 3

alphafold_singularity

Singularity recipe for AlphaFold

Language:PythonGPL-3.031 5 30

mp_nerf

Massively-Parallel Natural Extension of Reference Frame

Language:Jupyter Notebook29 4 4

voronota

Voronota is a software tool for analyzing three-dimensional structures of biological macromolecules using the Voronoi diagram of atomic balls.

Language:C++MIT23 4 4

int2cart

Building more accurate protein structures from backbone torsion angles

Language:Python1400

pdb_data_download

Language:ShellMIT1300

CommonNNClustering

A Python package for common-nearest-neighbours clustering

Language:CythonMIT9 2 10

docs

Documentation for the Koes Research Group. Most likely woefully inadequate.

5 7 1

CookBook

A compilation of all the best recipes

Language:TeX3 3 1