For analysis of microbiome and microbial community data
42 Stars
Updated Last
1 Year Ago
Started In
August 2017

Microbiome.jl logo

status EcoJulia maintainer: kescobo

Latest Release

Latest Release

Docs stable License Project Status: Active – The project has reached a stable, usable state and is being actively developed.

Development Status

Docs dev CI codecov


Microbiome.jl is a package for manipulating and analyzing microbiome and microbial community data.


To use the latest version of Microbiome.jl, you must be on julia v1.6 or greater.

Install Microbiome.jl from the Julia REPL:

julia> using Pkg

julia> pkg"add Microbiome"

If you are interested in the cutting edge of the development, please check out the master branch to try new features before release.

julia> pkg"add Microbiome#main"

Companion Packages

  • You might also be interested in some functionality provided by BiobakeryUtils.jl.
  • Microbiome.jl uses EcoBase under the hood for many of its types and methods.
  • Microbiome.jl has a Tables.jl interface, so you can convert CommunityProfiles to any Tables.jl-compatible sink.
    • CommunityProfile is not yet a sink itself