Genomics Packages
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PhyloNetworks.jl69A Julia package for statistical inference, data manipulation and visualization of phylogenetic networks
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OpenGene.jl59(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia
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Pathogen.jl50Simulation, visualization, and inference tools for modelling the spread of infectious diseases with Julia
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Gillespie.jl37Stochastic Gillespie-type simulations using Julia
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GenomeGraphs.jl29A modern genomics framework for julia
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IntervalTrees.jl23A data structure for efficient manipulation of sets of intervals
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FusionDirect.jl23(No maintenance) Detect gene fusion directly from raw fastq files
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BioAlignments.jl21Sequence alignment tools
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FastaIO.jl9Utilities to read/write FASTA format files in Julia
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PhyloTrees.jl7Phylogenetic trees in Julia
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ProgressiveAligner.jl6Progressive alignment scripts for protein sequences
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XSim.jl6Simulate sequence data and complicated pedigree structures
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LCS.jl6A Julia package for finding longest common and longest contiguous subsequences
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BioArgParse.jl3Extension to ArgParse.jl, enabling parsing of command line parameters to types in Bio.jl.
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SpeedDate.jl3Estimation of coalescence times between sequences.
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MerCounting.jl2K-mer counting algorithms and count-data utilities for the BioJulia framework
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Ensemble.jl2Ensemble Samplers for Julia
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HyperNEAT.jl2HyperNEAT
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Pagel.jl2Detect correlated evolution on phylogenies
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TimeTrees.jl2Phylogenetic tree type for julia
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VariantCall.jl1-
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GenomeAnnotations.jl1Manage Local Genome Annotation files
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PureSeq.jl1Code for the Pure-seq project
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BismarkSummary.jl0-
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YARS.jl0YARS communication for julia
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BioFeatures.jl0-
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GenomicTiles.jl0-
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OBC.jl0Optimal Bayesian classification for RNA-Seq data
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COSMIC.jl0-
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PseudoGenomes.jl0-
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