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The Top 23 Python Bioinformatics Computational Biology Open Source Projects

Open source projects categorized as Python Bioinformatics Computational Biology
Categories > Data Processing > Bioinformatics
Categories > Computational Biology
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29most recent commit 4 months agopypi graphein} Downloads
Seq ⭐ 624
A high-performance, Pythonic language for bioinformatics
most recent commit a year ago
Dash Cytoscape ⭐ 555
Interactive network visualization in Python and Dash, powered by Cytoscape.js
dependent packages 2total releases 9most recent commit 3 months agonpm dash-cytoscape} Downloads
Biotite ⭐ 515
A comprehensive library for computational molecular biology
dependent packages 21total releases 52most recent commit 3 months agopypi biotite} Downloads
Cobrapy ⭐ 414
COBRApy is a package for constraint-based modeling of metabolic networks.
dependent packages 84total releases 101most recent commit 6 months agopypi cobra} Downloads
Dance ⭐ 284
DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis
total releases 4most recent commit 3 months ago
Metagem ⭐ 155
💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
most recent commit 4 months ago
Indra ⭐ 154
INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.
dependent packages 7total releases 29most recent commit 3 months agopypi indra} Downloads
Clairvoyante ⭐ 142
Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing
most recent commit 3 years ago
Souporcell ⭐ 134
Clustering scRNAseq by genotypes
most recent commit 6 months ago
Dna2vec ⭐ 103
dna2vec: Consistent vector representations of variable-length k-mers
most recent commit 4 years ago
Python_biologist ⭐ 101
Python Programming for Biologists
most recent commit 7 months ago
Riddle ⭐ 91
Race and ethnicity Imputation from Disease history with Deep LEarning
most recent commit 6 years ago
Clair ⭐ 74
Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
most recent commit 3 years ago
Pyfeat ⭐ 68
A Python-based Effective Feature Generation Tool from DNA, RNA, and Protein Sequences
most recent commit 2 years ago
Neodti ⭐ 54
NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions
most recent commit 3 years ago
Glycowork ⭐ 46
Package for processing and analyzing glycans and their role in biology.
dependent packages 1total releases 9most recent commit 4 months agopypi glycowork} Downloads
Fabind ⭐ 45
FABind: Fast and Accurate Protein-Ligand Binding (NeurIPS 2023)
most recent commit 4 months ago
Cell2cell ⭐ 44
User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
most recent commit 5 months ago
Cnapy ⭐ 36
An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!
most recent commit 3 months ago
Pycontact ⭐ 34
Analysis of non-covalent interactions in MD trajectories
total releases 2most recent commit a year ago
Safepy ⭐ 34
Python implementation of Spatial Analysis of Functional Enrichment (SAFE)
most recent commit 4 months ago
Dcc ⭐ 31
DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of filters and integrates data across replicate sets to arrive at a precise list of circRNA candidates.
most recent commit 2 years ago
The 8 Most Depended On Python Bioinformatics 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 6 months agopypi cobra} Downloads
Biotite ⭐ 515
A comprehensive library for computational molecular biology
dependent packages 21total releases 52latest release September 09, 2023most recent commit 3 months agopypi biotite} Downloads
Itolapi ⭐ 31
Python API for the Interactive Tree of Life (iTOL)
dependent packages 4total releases 20latest release January 15, 2023most recent commit 3 months agopypi itolapi} Downloads
Dash Cytoscape ⭐ 555
Interactive network visualization in Python and Dash, powered by Cytoscape.js
dependent packages 2total releases 9latest release May 25, 2021most recent commit 3 months agonpm dash-cytoscape} Downloads
Toolchest Client Python ⭐ 13
Toolchest Python client
dependent packages 1total releases 84latest release January 26, 2023most recent commit a year agopypi toolchest-client} Downloads
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29latest release October 27, 2023most recent commit 4 months agopypi graphein} Downloads
Glycowork ⭐ 46
Package for processing and analyzing glycans and their role in biology.
dependent packages 1total releases 9latest release August 27, 2023most recent commit 4 months agopypi glycowork} Downloads
The 10 Latest Releases In Python Bioinformatics 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 3 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 6 months agopypi cobra} Downloads
Graphein ⭐ 932
Protein Graph Library
dependent packages 1total releases 29latest release October 27, 2023most recent commit 4 months agopypi graphein} Downloads
Biotite ⭐ 515
A comprehensive library for computational molecular biology
dependent packages 21total releases 52latest release September 09, 2023most recent commit 3 months agopypi biotite} Downloads
Glycowork ⭐ 46
Package for processing and analyzing glycans and their role in biology.
dependent packages 1total releases 9latest release August 27, 2023most recent commit 4 months agopypi glycowork} Downloads
Scphylo Tools ⭐ 5
a python toolkit for single-cell tumor phylogenetic analysis
total releases 5latest release July 26, 2023most recent commit 4 months ago
Toolchest Client Python ⭐ 13
Toolchest Python client
dependent packages 1total releases 84latest release January 26, 2023most recent commit a year agopypi toolchest-client} Downloads
Itolapi ⭐ 31
Python API for the Interactive Tree of Life (iTOL)
dependent packages 4total releases 20latest release January 15, 2023most recent commit 3 months agopypi itolapi} Downloads
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