Top 66 biology open source projects

A taxonomic toolbelt for R

Software for writing protocols and running them on the Opentrons OT-2

A powerful open source data warehouse system

An interactive heatmap visualization built using D3.js

Ten Quick Tips for Deep Learning in Biology

Curated (meta)list of resources for Biology.

Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software

Protein order and disorder data for Keras, Tensor Flow and Edward frameworks with automated update cycle made for continuous learning applications.

Build, share, and embed visualizations of metabolic pathways.

A Python Library for Conway's Game of Life

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.

Race and ethnicity Imputation from Disease history with Deep LEarning

Biological sequences for the julia language

Project Home repo for Central Dockerfile and Project-wide issues

Global Biotic Interactions provides access to existing species interaction datasets

Python Programming for Biologists

Brainfarts are caused by the rupturing of the cerebral sphincter.

A list of web-based interactive biological data visualizations.

MetaSRA: normalized sample-specific metadata for the Sequence Read Archive

The main repository for the development of the evolution game Thrive.

📈R package for analyzing biological growth

Scripts to download genomes from the NCBI FTP servers

3d engine implementation in DNA code!

Chainer Chemistry: A Library for Deep Learning in Biology and Chemistry

🔬A library of JavaScript components to represent biological data

A modern genome browser built with JavaScript and HTML5.

Java utilities for Bioinformatics

Therapeutics Data Commons: Machine Learning Datasets and Tasks for Therapeutics

Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

World Register of Marine Species R client

DOM Text Based Multiple Sequence Alignment Library

A Convolutional Neural Network for Segmenting and Counting Cells in Microscopy Images

A PyTorch and TorchDrug based deep learning library for drug pair scoring.

Hardware and software for accessible, extensible, and scalable bioreactors. Built on Raspberry Pi.

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

An open-access bioinformatics text

The Aquarium Lab Operating System

Feature Annotation Location Description Ontology

The new and improved 2018 version of the EMBL Python BioImage Analysis Tutorial. Now finally in python 3!

An R package for plotting microtitre plates

A library of free open source icons for science illustrations in biology and chemistry

Protein structure comparison tools such as SSAP and SNAP

Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files

No description or website provided.

Bioclipse2 Core.

Binomica Public Repository for Biological Parts

Sequence alignment tools

Research on polio / protein folding.

Predict AMPs in (meta)genomes and peptides

plant collections manager (desktop version)

A web application to visualize and edit pathway models

Cellular Automata Simulator

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

View biological networks via Cytoscape.js and sbgn-ml

Datastructures and algorithms for working with genetic variation

A web application to visualize and edit the pathway models represented by SBGN Process Description Notation

Julia Catalyst.jl importers for various reaction network file formats like BioNetGen and stoichiometry matrices