CSB-KaracaLab

CSB-KaracaLab's Stars

• JuliaLang/julia

  The Julia Programming Language

  Language:Julia45.5k93125.3k5.5k

• google-deepmind/alphafold

  Open source code for AlphaFold.

  Language:Python12.3k2208502.2k

• aqlaboratory/openfold

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

  Language:Python2.7k46347518

• eseckel/ai-for-grant-writing

  A curated list of resources for using LLMs to develop more competitive grant applications.

  Language:Python1.9k170253

• Peldom/papers_for_protein_design_using_DL

  List of papers about Proteins Design using Deep Learning

  1.4k1121171

• steineggerlab/foldseek

  Foldseek enables fast and sensitive comparisons of large structure sets.

  Language:C7801931999

• vsbuffalo/bds-files

  Supplementary files for my book, "Bioinformatics Data Skills"

  Language:Python6066619360

• INK-USC/RE-Net

  Recurrent Event Network: Autoregressive Structure Inference over Temporal Knowledge Graphs (EMNLP 2020)

  Language:Python436107495

• pablo-arantes/making-it-rain

  Cloud-based molecular simulations for everyone

  Language:Rich Text Format38517116105

• haddocking/pdb-tools

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

  Language:Python3841471113

• chemosim-lab/ProLIF

  Interaction Fingerprints for protein-ligand complexes and more

  Language:Python3601514368

• AngelRuizMoreno/Jupyter_Dock

  Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.

  Language:Jupyter Notebook25312966

• mathworks/jupyter-matlab-proxy

  MATLAB Integration for Jupyter enables you to run MATLAB code in Jupyter Notebooks and other Jupyter environments. You can also open MATLAB in a browser directly from your Jupyter environment to use more MATLAB features.

  Language:Python246169034

• steineggerlab/foldcomp

  Compressing protein structures effectively with torsion angles

  Language:C++15254114

• paulrobustelli/CHEM101.6

  Language:Jupyter Notebook1233128

• jproney/AF2Rank

  Language:Jupyter Notebook925812

• MDAnalysis/WorkshopMDMLEdinburgh2022

  Language:Jupyter Notebook64121114

• cbalbin-bio/pymol-color-alphafold

  PyMOL extension to color AlphaFold structures by confidence (pLDDT).

  Language:Python622322

• wolberlab/OpenMMDL

  Interface to OpenMM for easy setup of molecular dynamic simulations of protein-ligand complexes

  Language:Python6121010

• kiharalab/GNN_DOVE

  Code for "Protein Docking Model Evaluation by Graph Neural Networks"

  Language:Python565922

• pengzhangzhi/Awesome-Computational-Structural-Biology

  A curated list of awesome self-learning materials in Computational Structural Biology, such as sources, tutorials, etc.

  33200

• haddocking/haddocking.github.io

  Webpage of the Bonvinlab @ Utrecht University and HADDOCK software

  Language:HTML13161221

• ScheltemaLab/ChimeraX_XMAS_bundle

  Language:Python13361

• clami66/dgram2dmap

  Converts AlphaFold distograms into distance matrices and saves them into a number of formats

  Language:Python11101

• johnlamb/pyconsFold

  Language:Python7311

• choderalab/rbd-ace2-contact-analysis

  Code and workflow for running MD simulations on Folding@home to analyze RBD:ACE2 contacts

  Language:Python5821

• aysebercin/DNMT3AB_specificity

  Language:Jupyter Notebook31

• clami66/AF_server

  Language:Python31

• busrasavas/AFanalysis

  Quick analysis for AlphaFold models

  Language:Python2101

• CSB-KaracaLab/AFanalysis

  Quick analysis for AlphaFold models

  Language:Python1000