Topic: biology Goto Github

👇 Here are 1462 public repositories matching this topic...

astrazeneca / chemicalx
biology,A PyTorch and TorchDrug based deep learning library for drug pair scoring. (KDD 2022)
Organization: astrazeneca
Home Page: https://chemicalx.readthedocs.io
deep-learning pytorch deep-chemistry graph-neural-network drug drug-pair polypharmacy drug-discovery pharma drug-interaction

benjamin-lee / deep-rules
biology,Ten Quick Tips for Deep Learning in Biology
User: benjamin-lee
Home Page: https://benjamin-lee.github.io/deep-rules/
bioinformatics biology computational-biology data-science deep-learning genomics machine-learning manubot manuscript

biojs / biojs
biology,🔬A library of JavaScript components to represent biological data
Organization: biojs
Home Page: http://biojs.net/
biojs biology visualisation javascript

biojulia / bio.jl
biology,[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia
Organization: biojulia
Home Page: http://biojulia.dev
bioinformatics biology genomics dna deprecated biojulia biojulia-packages

biojulia / biosequences.jl
biology,Biological sequences for the julia language
Organization: biojulia
Home Page: http://biojulia.dev/BioSequences.jl
biojulia bioinformatics biology biological-sequences

biologyguy / buddysuite
biology,Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
User: biologyguy
bioinformatics python phylogenetics dna protein alignment command-line workflow biology

bjornfjohansson / pydna
biology,Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
User: bjornfjohansson
bioinformatics biopython python anaconda dna gel jupyter-notebooks biology pydna jupyter-notebook

burkesquires / python_biologist
biology,Python Programming for Biologists
User: burkesquires
python biology biology-education bioinformatics computational-biology data-analysis data-science

chainer / chainer-chemistry
biology,Chainer Chemistry: A Library for Deep Learning in Biology and Chemistry
Organization: chainer
deep-learning chemistry neural-network biology chainer python graph-convolutional-networks

chao1224 / geom3d
biology,Geom3D: Geometric Modeling on 3D Structures, NeurIPS 2023
User: chao1224
Home Page: https://openreview.net/forum?id=ygXSNrIU1p
3d 3d-structures biology chemistry crystals drugs equivariance geometry group invariance

cogent3 / cogent3
biology,Comparative Genomics Toolkit 3
Organization: cogent3
Home Page: https://cogent3.org
bioinformatics biological-sequence-analysis biology biopython data-science evolution genomics markov-chain maximum-likelihood molecular-evolution non-stationary parallel phylogenetic-trees phylogenetics pycogent python sequence-alignment signal-processing statistics

csbiology / biofsharp
biology,Open source bioinformatics and computational biology toolbox written in F#.
Organization: csbiology
Home Page: https://csbiology.github.io/BioFSharp/
bioinformatics biostatistics datascience biology dataprocessing fsharp amino-acids nucleotides sequence-analysis docker

deepchem / deepchem
biology,Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology
Organization: deepchem
Home Page: https://deepchem.io/
drug-discovery quantum-chemistry deep-learning biology materials-science hacktoberfest

duerrsimon / bioicons
biology,A library of free open source icons for science illustrations in biology and chemistry
User: duerrsimon
Home Page: https://bioicons.com
illustration science biology chemistry graphics

epam / cloud-pipeline
biology,Cloud agnostic genomics analysis, scientific computation and storage platform
Organization: epam
Home Page: https://cloud-pipeline.com
cloud aws azure ngs modelling biology chemistry google-cloud

globalbioticinteractions / globalbioticinteractions
biology,Global Biotic Interactions provides access to existing species interaction datasets
Organization: globalbioticinteractions
Home Page: https://globalbioticinteractions.org
eol ecology biology ecoinformatics globi species-interactions bioinformatics etl-framework food-webs pollinators

gmod / jbrowse
biology,JBrowse 1, a full-featured genome browser built with JavaScript and HTML5. For JBrowse 2, see https://github.com/GMOD/jbrowse-components.
Organization: gmod
Home Page: http://jbrowse.org
genomics genome-browser genome-annotation protein-annotation bioinformatics biology

hallvaaw / awesome-biological-image-analysis
biology,A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.
User: hallvaaw
awesome awesome-list bioimage-analysis biology cellprofiler image-analysis image-processing imagej imaging microscopy segmentation

histolab / histolab
biology,Library for Digital Pathology Image Processing
Organization: histolab
Home Page: http://histolab.readthedocs.io
digital-pathology-data digital-pathology bioinformatics biology wsi hacktoberfest data-science python science-research research

intermine / intermine
biology,A powerful open source data warehouse system
Organization: intermine
Home Page: http://intermine.org
data-warehouse java tomcat genomics open-source opensource lgplv3 postgresql clojure clojurescript

ismms-himc / clustergrammer2
biology,"Dimensionality-increasing" data visualization tool and interactive WebGL Jupyter widget built for single-cell data.
Organization: ismms-himc
Home Page: https://clustergrammer.readthedocs.io/case_studies.html
python jupyter-widgets javascript webgl regl heatmap biology visualization binder binder-ready

kblin / ncbi-genome-download
biology,Scripts to download genomes from the NCBI FTP servers
User: kblin
ncbi bioinformatics download-genomes python biology genomics command-line genbank

keller-mark / awesome-biological-visualizations
biology,A list of web-based interactive biological data visualizations.
User: keller-mark
awesome awesome-list biology cancer data-visualization genomics medicine transcriptomics visualization

kyegomez / alphafold3
biology,Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch
User: kyegomez
Home Page: https://discord.gg/7VckQVxvKk
ai alphafold bio ml geneml artificial-intelligence biology biology-ai

lattice-automation / seqviz
biology,a JavaScript DNA, RNA, and protein sequence viewer
Organization: lattice-automation
Home Page: https://tools.latticeautomation.com/seqviz
dna igem synthetic-biology vector plasmid rna biology protein

lindenb / jvarkit
biology,Java utilities for Bioinformatics
User: lindenb
Home Page: https://jvarkit.readthedocs.io/
bioinformatics java next-generation-sequencing ngs science biology genomics

ljvmiranda921 / seagull
biology,A Python Library for Conway's Game of Life
User: ljvmiranda921
Home Page: https://pyseagull.readthedocs.io/en/latest/index.html#
artificial-life artificial-life-algorithms biology cellular-automata conways-game-of-life game-of-life mathematics simulation-framework

lmdu / pyfastx
biology,a python package for fast random access to sequences from plain and gzipped FASTA/Q files
User: lmdu
Home Page: https://pyfastx.readthedocs.io
fasta python biology dna genome assembly sequence fastq bioinformatics

maayanlab / clustergrammer
biology,An interactive heatmap visualization built using D3.js
Organization: maayanlab
Home Page: http://maayanlab.github.io/clustergrammer/scrolling_tour
clustering visualization python jupyter-notebook jupyter-widget biology heatmap d3

mims-harvard / tdc
biology,Therapeutics Commons (TDC-2): Multimodal Foundation for Therapeutic Science
Organization: mims-harvard
Home Page: https://tdcommons.ai
machine-learning therapeutics drug-discovery datasets biology chemistry biomedicine bioinformatics cheminformatics deep-learning

opentrons / opentrons
biology,Software for writing protocols and running them on the Opentrons Flex and Opentrons OT-2
Organization: opentrons
Home Page: https://opentrons.com
biology robotics science

openworm / openworm
biology,Repository for the main Dockerfile with the OpenWorm software stack and project-wide issues
Organization: openworm
Home Page: http://openworm.org
openworm elegans biology simulation

pachterlab / poseidon
biology,poseidon system - open source syringe pumps and microscope for laboratories
Organization: pachterlab
Home Page: https://pachterlab.github.io/poseidon
wetlab open-source-hardware science-research biology

pallada-92 / dna-3d-engine
biology,3d engine implementation in DNA code!
User: pallada-92
Home Page: https://observablehq.com/@pallada-92/3d-engine-in-dna-code
dna piperine strand-displacement chemical-reaction-networks chemical-kinetics chemical-reactions in-vitro molecular-programming molecular-biology biology

peptoneltd / dspp-keras
biology,Protein order and disorder data for Keras, Tensor Flow and Edward frameworks with automated update cycle made for continuous learning applications.
Organization: peptoneltd
Home Page: https://peptone.io/dspp
protein protein-structure biology biotechnology machine-learning ai tensorflow keras amino-acids polymer

r74ncom / sandboxels
biology,In-browser falling-sand simulation game with over 500 elements and thousands of reactions.
Organization: r74ncom
Home Page: https://sandboxels.r74n.com/
biology browser-game cellular-automata cellular-automaton chemistry chemistry-lab falling-sand physics-simulation science simulation

raivivek / awesome-biology
biology,Curated (meta)list of resources for Biology.
User: raivivek
biology awesome-list bioinformatics books evolution systems-biology science

rcedgar / muscle
biology,Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, enabling assessment of downstream analyses such as trees and predicted structures.
User: rcedgar
Home Page: https://drive5.com/muscle
bioinformatics biology algorithms nucleotide-alignment protein-alignment sequence-clustering sequence-search protein-structure protein-structure-alignment

revolutionary-games / thrive
biology,The main repository for the development of the evolution game Thrive.
Organization: revolutionary-games
Home Page: https://revolutionarygamesstudio.com/
thrive game simulation evolution strategy biology science sandbox csharp godot

reymond-group / smilesdrawer
biology,A small, highly performant JavaScript component for parsing and drawing SMILES strings. Released under the MIT license.
Organization: reymond-group
Home Page: https://smilesdrawer.rocks
biology chemistry data-visualization javascript-library science

ropensci / taxize
biology,A taxonomic toolbelt for R
Organization: ropensci
Home Page: https://docs.ropensci.org/taxize
taxonomy data api biodiversity biology rstats nomenclature darwincore taxize api-wrapper r r-package

salvatorera / tutorial
biology,Tutorials on machine learning, artificial intelligence, data science with math explanation and reusable code (in python and R)
User: salvatorera
machine-learning artificial-intelligence data-science tutorial deep-learning python r bioinformatics biology computer-vision convolutional-neural-networks graph image natural-language-processing nlp streamlit streamlit-webapp tutorials vision-transformer

samirelanduk / atomium
biology,Python macromolecular parsing (with .pdb/.cif/.mmtf parsing and production)
User: samirelanduk
Home Page: https://atomium.bio
biology proteins structural-biology chemistry molecules

sciml / catalyst.jl
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.
Organization: sciml
Home Page: https://docs.sciml.ai/Catalyst/stable/
biology chemical-reactions differential-equations dsl gillespie-algorithm julia ode rate-laws reaction-network scientific-machine-learning sciml sde simulation systems-biology systems-biology-simulation

sorgerlab / indra
biology,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.
Organization: sorgerlab
Home Page: http://indra.bio
bioinformatics biology computational-biology indra modeling nlp pysb sbml systems-biology

tariqdaouda / pygeno
biology,Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
User: tariqdaouda
Home Page: http://pygeno.iric.ca
bioinformatics biology genomics proteomics genome genome-annotation genome-browser genome-sequencing genomes medical

upsidedownlabs / bioamp-exg-pill
biology,BioAmp EXG Pill is a small and elegant Analog Front End (AFE) board for BioPotential signal acquisition.
Organization: upsidedownlabs
Home Page: https://www.crowdsupply.com/upside-down-labs/bioamp-exg-pill
bioelectronics emg emg-signal biopotential-signals prosthetics prosthetic-design biology bioamp-emg-pill hardware upsidedownlabs

vanessajurtz / lasagne4bio
biology,
User: vanessajurtz
biology deep-learning sequence-analysis

wheretrue / biobear
biology,Work with bioinformatic files using Arrow, Polars, and/or DuckDB
Organization: wheretrue
Home Page: https://www.wheretrue.dev/docs/exon/biobear/
bioinformatics biology rust-bio samtools arrow python biopython duckdb polars pyarrow

zakandrewking / escher
biology, Build, share, and embed visualizations of metabolic pathways.
User: zakandrewking
Home Page: https://escher.github.io
javascript escher visualization biology bioinfomatics d3js python