Biology Packages
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DiffEqBiological.jl342Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software
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Bio.jl258[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia
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Bijectors.jl160Implementation of normalising flows and constrained random variable transformations
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PhyloNetworks.jl133A Julia package for statistical inference, data manipulation and visualization of phylogenetic networks
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BioSequences.jl130Biological sequences for the julia language
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DataInterpolations.jl129A library of data interpolation and smoothing functions
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Circuitscape.jl115Algorithms from circuit theory to predict connectivity in heterogeneous landscapes
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JWAS.jl78Julia for Whole-genome Analysis Software
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BioStructures.jl72A Julia package to read, write and manipulate macromolecular structures (particularly proteins)
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VariantVisualization.jl69Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
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Pathogen.jl68Simulation, visualization, and inference of individual level infectious disease models with Julia
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EcologicalNetworks.jl66Everything you've never dreamed about measuring on ecological networks.
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EcologicalNetwork.jl66Everything you've never dreamed about measuring on ecological networks.
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MIToS.jl63Mutual Information Tools for protein Sequence analysis in Julia
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OpenGene.jl63(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia
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Gillespie.jl60Stochastic Gillespie-type simulations using Julia
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GenomeGraphs.jl59A modern genomics framework for julia
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GeneticsMakie.jl57🧬High-performance genetics-related data visualization using Makie.jl
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BioAlignments.jl56Sequence alignment tools
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SpatialEcology.jl54Julia framework for spatial ecology - data types and utilities
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COBRA.jl53High-level, high-performance, constraint-based reconstruction and analysis in Julia
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FlashWeave.jl52Inference of microbial interaction networks from large-scale heterogeneous abundance data
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CellMLToolkit.jl51CellMLToolkit.jl is a Julia library that connects CellML models to the Scientific Julia ecosystem.
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GpABC.jl50-
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Conductor.jl47Choo-choo
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FASTX.jl43Parse and process FASTA and FASTQ formatted files of biological sequences.
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CellFishing.jl42Fast and scalable cell search tool
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Microbiome.jl42For analysis of microbiome and microbial community data
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EEG.jl42Neuroimaging in Julia
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DeconvOptim.jl42A multi-dimensional, high performance deconvolution framework written in Julia Lang for CPUs and GPUs.
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Neuroimaging.jl42Neuroimaging in Julia
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NetworkInference.jl40Methods for inferring undirected networks from data
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IntervalTrees.jl40A data structure for efficient manipulation of sets of intervals
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SnpArrays.jl40Compressed storage for SNP data
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SpikingNeuralNetworks.jl37Julia Spiking Neural Network Simulator
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PopGen.jl37Population Genetics in Julia
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BioMakie.jl36User interface tools for bioinformatics.
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RealNeuralNetworks.jl35A unified framework for skeletonization, morphological analysis, and connectivity analysis.
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DCEMRI.jl34DCE MRI analysis in Julia
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GeneticVariation.jl34Datastructures and algorithms for working with genetic variation
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