zanderharteveld

Zander Harteveld's starred repositories

dataframe_image

A python package for embedding pandas DataFrames as images into pdf and markdown documents

Language:Jupyter NotebookMIT26900

alphaflow

AlphaFold Meets Flow Matching for Generating Protein Ensembles

Language:PythonMIT27300

ChatMol

ChatGPT in PyMOL now!

Language:PythonMIT12400

RFdiffusion

Code for running RFdiffusion

Language:PythonNOASSERTION152800

statannotations

add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.

Language:PythonNOASSERTION61000

pzfx_parser

Python package to load and parse tables in a Prism pzfx file.

Language:PythonMIT700

pymol_viridis

Colorblind-friendly, perceptually uniform palettes for pymol

Language:PythonMIT1700

diffab

✌🏻 Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures (NeurIPS 2022)

Language:PythonApache-2.023400

blackcellmagic

IPython magic command to format python code in cell using black.

Language:PythonMIT30400

knot_pull

Python module for knot-like structure detection in biological molecules

Language:PythonGPL-3.0800

alphafold_non_docker

AlphaFold2 non-docker setup

Language:Shell32000

molstar

A comprehensive macromolecular library

Language:TypeScriptMIT59800

cookiecutter

A cross-platform command-line utility that creates projects from cookiecutters (project templates), e.g. Python package projects, C projects.

Language:PythonBSD-3-Clause2183700

logomaker

Software for the visualization of sequence-function relationships

Language:Jupyter NotebookMIT17000

pytorch-metric-learning

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

Language:PythonMIT583700

rifdock

Rifdock Library for Conformational Search

Language:C++NOASSERTION11900

folding_tools

A collection of *fold* tools

MIT27500

jupyter-vim

Make Vim talk to Jupyter kernels

Language:PythonNOASSERTION50000

vimrc

The ultimate Vim configuration (vimrc)

Language:Vim ScriptMIT3024800

MolecularNodes

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

Language:PythonMIT82000

miniforge

A conda-forge distribution.

Language:ShellNOASSERTION559700

mosh

Mobile Shell

Language:C++GPL-3.01229700

ANARCI

Antibody Numbering and Antigen Receptor ClassIfication

Language:PythonBSD-3-Clause15700

Alphafold2import

PyMOL plugin to import Alphafold2 models hosted by EMBL, based on fetch-functionality

Language:Python1500

DeepGenerativeModelingIntro

PyTorch Code used in 'Introduction to Deep Generative Modeling'

Language:PythonMIT4100

pymolsnips

Pymolsnips is a library of PyMOL scripting language code fragments for several popular text editors.

Language:Vim SnippetMIT4000

stapler

A Motif Hash Based Method for Matching Crosslinkers into Peptides and Proteins

Language:Python1500

alphafold

Open source code for AlphaFold.

Language:PythonApache-2.01199300

RoseTTAFold

This package contains deep learning models and related scripts for RoseTTAFold

Language:PythonMIT194300

releasing-research-code

Tips for releasing research code in Machine Learning (with official NeurIPS 2020 recommendations)

MIT254100