structural-biology

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Here are 74 public repositories matching this topic...

biotite-dev / biotite

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A comprehensive library for computational molecular biology

bioinformatics structural-biology computational-biology sequence-analysis

Updated Jul 17, 2020
Python

haddocking / pdb-tools

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

python bioinformatics structural-biology pdb protein pdb-files

Updated Jun 8, 2020
Python

I2PC / scipion

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Scipion is an image processing framework to obtain 3D models of macromolecular complexes using Electron Microscopy (3DEM)

python c-plus-plus workflow structural-biology image-processing reproducible-science usability electron-microscopy cryo-em single-particle-analisys

Updated Jun 4, 2020
Python

project-gemmi / gemmi

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macromolecular crystallography library and utilities

structural-biology molecular-structures protein-structure crystallography cif ccp4 mmcif pdb-files mtz

Updated Jul 17, 2020
C++

SBRG / ssbio

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A Python framework for structural systems biology

structural-biology protein-structure systems-biology cobrapy constraint-based-modeling structural-systems-biology

Updated Oct 17, 2019
Python

salilab / imp

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The Integrative Modeling Platform

python c-plus-plus structural-biology protein-structure integrative-modeling

Updated Jul 10, 2020
C++

BALL-Project / ball

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The Biochemical Algorithms Library

c-plus-plus structural-biology computational-biology force-field chemoinformatics drug-design

Updated May 25, 2020
C++

a-r-j / graphein

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Protein Graph Library

bioinformatics deep-learning structural-biology protein-data-bank protein-structure computational-biology pytorch protein protein-design geometric-deep-learning graph-neural-networks dgl

Updated Jul 17, 2020
Jupyter Notebook

mittinatten / freesasa

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C-library for calculating Solvent Accessible Surface Areas

c bioinformatics structural-biology pdb

Updated Dec 23, 2019
C

jonathanking / protein-transformer

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Predicting protein structure through sequence modeling

machine-learning structural-biology protein-structure computational-biology attention sequence-to-sequence

Updated May 4, 2020
Jupyter Notebook

cxhernandez / ipymol

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Control PyMOL sessions via IPython

visualization python notebook structural-biology

Updated Jul 12, 2019
Python

BioJulia / BioStructures.jl

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A Julia package to read, write and manipulate macromolecular structures (particularly proteins)

bioinformatics biology structural-biology pdb julia protein-structure structural-bioinformatics biojulia

Updated Jun 10, 2020
Julia

samirelanduk / atomium

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Python macromolecular parsing (with .pdb/.cif/.mmtf parsing and production)

chemistry biology proteins structural-biology molecules

Updated May 1, 2020
Python

proteinevolution / Toolkit

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The MPI Bioinformatics Toolkit

open-source bioinformatics akka structural-biology protein-structure typelevel computational-biology play-framework web-application reactive-programming profile-search sequence-search profile-profile-search

Updated Jul 17, 2020
Scala

chopralab / lemon

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A framework for rapidly mining structural information from the Protein Data Bank

machine-learning data-mining chemistry cheminformatics structural-biology computational-chemistry

Updated Jun 2, 2020
C++

lightdock / lightdock

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Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

bioinformatics chemistry structural-biology molecular-structures protein-structure artificial-intelligence dna protein proteomics docking peptides molecular-biology protein-design protein-protein-interaction swarm-intelligence structural-bioinformatics protein-dna-interactions bioinformatics-tool glowworm-swarm-optimization protein-docking

Updated Jul 13, 2020
C++

freesasa / freesasa-python

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FreeSASA Python Module

python structural-biology pypi-packages

Updated Apr 14, 2020
Python

leeyang / ResPRE

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ResPRE is an algorithm for protein residue-residue contact-map prediction

bioinformatics structural-biology protein pytorch-implmention

Updated May 20, 2019
Python

jgreener64 / Bio3DView.jl

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A Julia package to view macromolecular structures in the REPL or in a Jupyter notebook/JupyterLab

bioinformatics structural-biology julia protein-structure jupyter-notebook ijulia structural-bioinformatics

Updated Jun 10, 2020
Julia

widdowquinn / Teaching-IBioIC-Intro-to-Bioinformatics

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Course materials for the IBioIC Introduction to Bioinformatics training course

python bioinformatics structural-biology jupyter-notebook teaching blast mybinder uniprot teaching-materials bioinformatics-course

Updated Jun 4, 2017
HTML

isambard-uob / isambard

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Intelligent System for Analysis, Model Building And Rational Design of biomolecules.

python bioinformatics structural-biology computational-biology university-of-bristol parametric-modelling

Updated Jul 1, 2019
Python

LPDI-EPFL / FunFolDesData

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Rosetta FunFolDes – a general framework for the computational design of functional proteins.

structural-biology protein-structure publication-data rosetta protein-design protein-protein-interaction functional-protein-design

Updated Apr 12, 2019
Scala

salilab / pmi

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Python Modeling Interface

python structural-biology protein-structure integrative-modeling

Updated Jul 10, 2020
Python

bio-phys / BioEn

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BioEn - Bayesian Inference Of ENsembles

structural-biology molecular-dynamics biological-simulations nmr data-integration bayesian-inference deer xray-scattering-experiments electron-paramagnetic-resonance saxs peldor

Updated Apr 6, 2020
Python

samirelanduk / ZincBindDB

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The database and API backend for ZincBind - the database of zinc binding sites

api graphql django database structural-biology protein-structure computational-biology

Updated Mar 17, 2020
Python

ddoak / peppy

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A VR app which allows creation and manipulation of dynamic models of polypeptides. Focus is fun and learning.

unity structural-biology protein-structure virtual-reality biochemistry

Updated Jan 1, 2020
C#

ncbi / HYDROID

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Python package for analyzing hydroxyl-radical footprinting experiments of DNA-protein complexes

bioinformatics structural-biology

Updated Jul 15, 2020
Python

woolfson-group / isambard

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Intelligent System for Analysis, Model Building And Rational Design.

python api bioinformatics analysis structural-biology pypi computational-biology modelling bristol protein-design coiled-coil collagen

Updated Apr 20, 2018
Python

salilab / rmf

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The library to support reading and writing of RMF files.

python c-plus-plus structural-biology protein-structure integrative-modeling

Updated May 23, 2020
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yamule / SurfStamp-public

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3D Printer Compatible Surface Representation of Macromolecules (Do not clone! Everything is in the release page!)

visualization bioinformatics biology structural-biology pdb protein-structure 3dprinting structural-bioinformatics

Updated May 20, 2020

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