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The Top 23 Computational Biology Open Source Projects

Open source projects categorized as Computational Biology
Categories > Computational Biology
Cs Video Courses ⭐ 62,887
List of Computer Science courses with video lectures.
most recent commit 5 months ago
Awesome Deepbio ⭐ 1,467
A curated list of awesome deep learning applications in the field of computational biology
most recent commit 5 years ago
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29most recent commit 6 months agopypi graphein} Downloads
Scikit Bio ⭐ 833
scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
most recent commit 2 months ago
3dmol.js ⭐ 720
WebGL accelerated JavaScript molecular graphics library
dependent packages 9total releases 37most recent commit 5 months agonpm 3dmol} Downloads
Opensim Core ⭐ 712
SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.
most recent commit 5 months ago
Diffdock ⭐ 686
Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
most recent commit 9 months ago
Biopandas ⭐ 673
Working with molecular structures in pandas DataFrames
dependent packages 20total releases 20most recent commit 9 months agopypi biopandas} Downloads
Seq ⭐ 624
A high-performance, Pythonic language for bioinformatics
most recent commit 2 years ago
Poly ⭐ 620
A Go package for engineering organisms.
most recent commit 5 months ago
Dash Cytoscape ⭐ 555
Interactive network visualization in Python and Dash, powered by Cytoscape.js
dependent packages 2total releases 9most recent commit 5 months agonpm dash-cytoscape} Downloads
Biotite ⭐ 515
A comprehensive library for computational molecular biology
dependent packages 21total releases 52most recent commit 6 months agopypi biotite} Downloads
Open Computational Neuroscience Resources ⭐ 481
A publicly-editable collection of open computational neuroscience resources
most recent commit 5 months ago
Openchem ⭐ 450
OpenChem: Deep Learning toolkit for Computational Chemistry and Drug Design Research
most recent commit 2 years ago
Cobrapy ⭐ 414
COBRApy is a package for constraint-based modeling of metabolic networks.
dependent packages 84total releases 101most recent commit 8 months agopypi cobra} Downloads
Pyphi ⭐ 345
A toolbox for integrated information theory.
dependent packages 2total releases 24most recent commit 6 months agopypi pyphi} Downloads
Dance ⭐ 284
DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis
total releases 4most recent commit 5 months ago
Jupyter_dock ⭐ 215
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.
most recent commit a year ago
Geodiff ⭐ 211
Implementation of GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation (ICLR 2022).
most recent commit a year ago
Deep Rules ⭐ 198
Ten Quick Tips for Deep Learning in Biology
most recent commit 3 years ago
Kent ⭐ 197
UCSC Genome Browser source tree. Stable branch: "beta".
most recent commit 5 months ago
Soapdenovo2 ⭐ 197
Next generation sequencing reads de novo assembler.
most recent commit 8 months ago
Clair3 ⭐ 191
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
most recent commit 5 months ago
The 10 Most Depended On Computational Biology Open Source Projects
Cobrapy ⭐ 414
COBRApy is a package for constraint-based modeling of metabolic networks.
dependent packages 84total releases 101latest release October 31, 2023most recent commit 8 months agopypi cobra} Downloads
Biotite ⭐ 515
A comprehensive library for computational molecular biology
dependent packages 21total releases 52latest release September 09, 2023most recent commit 6 months agopypi biotite} Downloads
Biopandas ⭐ 673
Working with molecular structures in pandas DataFrames
dependent packages 20total releases 20latest release August 28, 2023most recent commit 9 months agopypi biopandas} Downloads
Kisao ⭐ 9
Ontology of algorithms for analyzing biological models, their parameters, and their outputs
dependent packages 18total releases 21latest release October 10, 2021most recent commit 7 months agopypi kisao} Downloads
Liblevenshtein Java ⭐ 40
Various utilities regarding Levenshtein transducers. (Java)
dependent packages 10total releases 4latest release May 29, 2016most recent commit 6 years ago
3dmol.js ⭐ 720
WebGL accelerated JavaScript molecular graphics library
dependent packages 9total releases 37latest release October 23, 2023most recent commit 5 months agonpm 3dmol} Downloads
Myokit ⭐ 32
Myokit: A simple interface to cardiac cellular electrophysiology
dependent packages 6total releases 46latest release October 12, 2023most recent commit 5 months agopypi myokit} Downloads
Itolapi ⭐ 31
Python API for the Interactive Tree of Life (iTOL)
dependent packages 4total releases 20latest release January 15, 2023most recent commit 5 months agopypi itolapi} Downloads
R3dmol ⭐ 78
🧬 An R package for visualizing molecular data in 3D
dependent packages 2total releases 3latest release March 14, 2021most recent commit 8 months ago
The 10 Latest Releases In Computational Biology Open Source Projects
Dance ⭐ 284
DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis
total releases 4latest release December 04, 2023most recent commit 5 months ago
Cobrapy ⭐ 414
COBRApy is a package for constraint-based modeling of metabolic networks.
dependent packages 84total releases 101latest release October 31, 2023most recent commit 8 months agopypi cobra} Downloads
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29latest release October 27, 2023most recent commit 6 months agopypi graphein} Downloads
3dmol.js ⭐ 720
WebGL accelerated JavaScript molecular graphics library
dependent packages 9total releases 37latest release October 23, 2023most recent commit 5 months agonpm 3dmol} Downloads
Myokit ⭐ 32
Myokit: A simple interface to cardiac cellular electrophysiology
dependent packages 6total releases 46latest release October 12, 2023most recent commit 5 months agopypi myokit} Downloads
Biotite ⭐ 515
A comprehensive library for computational molecular biology
dependent packages 21total releases 52latest release September 09, 2023most recent commit 6 months agopypi biotite} Downloads
Slow5 Rs ⭐ 5
Low level bindings and wrapper for slow5lib, an alternative for ONT Nanopore sequencing FAST5 output
dependent packages 1total releases 11latest release September 04, 2023most recent commit 10 months agocargo slow5lib-sys} Downloads
Biopandas ⭐ 673
Working with molecular structures in pandas DataFrames
dependent packages 20total releases 20latest release August 28, 2023most recent commit 9 months agopypi biopandas} Downloads
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