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497 search results found

Deepchem ⭐ 4,876

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

Thrive ⭐ 2,492

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

Openworm ⭐ 2,214

Repository for the main Dockerfile with the OpenWorm software stack and project-wide issues

Deeplearning Biology ⭐ 1,846

A list of deep learning implementations in biology

Awesome Deepbio ⭐ 1,467

A curated list of awesome deep learning applications in the field of computational biology

Bioicons ⭐ 1,055

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

Getting Started With Genomics Tools And Resources ⭐ 991

Unix, R and python tools for genomics and data science

Therapeutics Data Commons: Artificial Intelligence Foundation for Therapeutic Science

Ncbi Genome Download ⭐ 784

Scripts to download genomes from the NCBI FTP servers

Chemicalx ⭐ 657

A PyTorch and TorchDrug based deep learning library for drug pair scoring. (KDD 2022)

Chainer Chemistry ⭐ 609

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

Awesome Diversity ⭐ 530

A curated list of amazingly awesome articles, websites and resources about diversity in technology.

Biotite ⭐ 515

A comprehensive library for computational molecular biology

Formal Systems In Biology ⭐ 448

Application of formal systems to model biological systems

🔬A library of JavaScript components to represent biological data

Jvarkit ⭐ 440

Java utilities for Bioinformatics

Jbrowse ⭐ 437

Full-featured and stable genome browser built with JavaScript and HTML5.

Catalyst.jl ⭐ 402

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

Opentrons ⭐ 372

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

Smilesdrawer ⭐ 371

A small, highly performant JavaScript component for parsing and drawing SMILES strings. Released under the MIT license.

Histolab ⭐ 315

Library for Digital Pathology Image Processing

Awesome Biology ⭐ 313

Curated (meta)list of resources for Biology.

Official code repository of "BERTology Meets Biology: Interpreting Attention in Protein Language Models."

Screpertoire ⭐ 270

A toolkit for single-cell immune profiling

Seurat Wrappers ⭐ 268

Community-provided extensions to Seurat

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

A taxonomic toolbelt for R

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

Intermine ⭐ 228

A powerful open source data warehouse system

Clustergrammer ⭐ 228

An interactive heatmap visualization built using D3.js

Learning Bioinformatics At Home ⭐ 226

resources for learning bioinformatics

Pyfastx ⭐ 211

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

Citizen Science ⭐ 202

🔬 A repository of resources related to citizen, community-based and/or non-institutional science

Deep Rules ⭐ 198

Ten Quick Tips for Deep Learning in Biology

Dna 3d Engine ⭐ 193

3d engine implementation in DNA code!

a JavaScript DNA, RNA, and protein sequence viewer

Biosyntax ⭐ 184

Syntax highlighting for computational biology

Pypesto ⭐ 183

python Parameter EStimation TOolbox

Bioamp Exg Pill ⭐ 181

BioAmp EXG Pill is a small and elegant Analog Front End (AFE) board for BioPotential signal acquisition.

Gerardus ⭐ 180

Computational biology and medical image processing scripts and programs

Build, share, and embed visualizations of metabolic pathways.

Deep_learning_papers ⭐ 175

A place to collect papers that are related to deep learning and computational biology

Dspp Keras ⭐ 160

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

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.

Poseidon ⭐ 148

poseidon system - open source syringe pumps and microscope for laboratories

Dl4moleculargraph ⭐ 146

Literature of deep learning for graphs in Chemistry and Biology

Python framework for Systems Biology modeling

Biosequences.jl ⭐ 141

Biological sequences for the julia language

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

Cloud Pipeline ⭐ 137

Cloud agnostic genomics analysis, scientific computation and storage platform

Multiple sequence alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, enabling assessment of downstream analyses such as trees and predicted structures.

SLiM is a genetically explicit forward simulation software package for population genetics and evolutionary biology. It is highly flexible, with a built-in scripting language, and has a cross-platform graphical modeling environment called SLiMgui.

Compbiodatasetsformachinelearning ⭐ 120

A Curated List of Computational Biology Datasets Suitable for Machine Learning

Seagull ⭐ 120

A Python Library for Conway's Game of Life

AI for tomography

Globalbioticinteractions ⭐ 114

Global Biotic Interactions provides access to existing species interaction datasets

Awesome Synthetic Biology ⭐ 110

A curated list of Synthetic Biology / Genetic Engineering projects, articles and resources. The main idea is that everyone can contribute here, so we can have a central repository of informations about this fascinating subject that we all can keep up-to-date.

Googlesummerofcode ⭐ 108

Main documentation site for NRNB GSoC project ideas and resources

Cybernetics Club ⭐ 106

🔃 Cybernetics Reading Club

Buddysuite ⭐ 105

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

Python_biologist ⭐ 101

Python Programming for Biologists

Biobear ⭐ 100

Work with bioinformatic files using Arrow, Polars, and/or DuckDB

Clustergrammer2 ⭐ 99

"Dimensionality-increasing" data visualization tool and interactive WebGL Jupyter widget built for single-cell data.

Refinery Platform ⭐ 97

The Refinery Platform is a data management, analysis and visualization system for bioinformatics and computational biology applications. The platforms consists of three major components: a data repository with rich metadata capabilities, a workflow engine based on the popular Galaxy system, and visualization tools to support the exploration and interpretation of results at all stages of the analysis process.

Sandboxels ⭐ 95

In-browser falling-sand simulation game with over 400 elements and thousands of reactions.

Tutorial ⭐ 94

Tutorials on machine learning, artificial intelligence, data science with math explanation and reusable code (in python and R)

Learn_synthetic_biology ⭐ 94

Biofsharp ⭐ 94

Open source bioinformatics and computational biology toolbox written in F#.

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

Race and ethnicity Imputation from Disease history with Deep LEarning

Tigerlily ⭐ 90

TigerLily: Finding drug interactions in silico with the Graph.

GENtle2 - Web-Based DNA Editor for Synthetic Biology

Lasagne4bio ⭐ 88

The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.

Onto_merger ⭐ 85

OntoMerger is an ontology alignment library for deduplicating knowledge graph nodes that represent the same domain.

Cellbase ⭐ 84

High-Performance NoSQL database and RESTful web services to access to most relevant biological data

DIYbiosphere is an open-source project to collect Do-it-Yourself Biology (DIYbio) initiatives from all over the world

Yeast Gem ⭐ 80

The consensus GEM for Saccharomyces cerevisiae

Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology

Comparative Genomics Toolkit 3

Biodynamo ⭐ 78

BioDynaMo is a high-performance and modular, agent-based simulation platform.

Biostructures.jl ⭐ 77

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

Geom3D: Geometric Modeling on 3D Structures, NeurIPS 2023

Czid Web ⭐ 75

Infectious Disease Sequencing Platform

Pioreactor ⭐ 75

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

Awesome Biological Image Analysis ⭐ 74

A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.

Sequencescape ⭐ 73

Python Bioimage Analysis Tutorial ⭐ 72

A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.

Netzoopy ⭐ 71

netZooPy is a network biology package implemented in Python.

Semester Biology ⭐ 70

Forkable teaching materials for course on working with data in R

Yesterday I Learned ⭐ 69

Brainfarts are caused by the rupturing of the cerebral sphincter.

Synbiohub ⭐ 67

Web application enabling users and software to browse, upload, and share synthetic biology designs

Bio Cwl Tools ⭐ 65

CWL CommandLineTool descriptions for biology/life-sciences related applications

Mitos.jl ⭐ 64

Mutual Information Tools for protein Sequence analysis in Julia

Awesome Scientific Go ⭐ 62

Go libraries for scientific computing

Deepcell Label ⭐ 60

Cloud-based data annotation tools for biological images

Machine Learning Resource ⭐ 60

Guideline For Computational Biology And Bioinformatics ⭐ 60

Computational synthetic biology: Predicting DNA edits for bioengineering

1-100 of 497 search results

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