recipe calour

exploratory and interactive microbiome analyses based on heatmaps


Developer docs:


BSD / BSD-3-Clause



Calour is a python package for processing, analysis and interactive exploration of microbiome (and other matrix form data), incorporating external databases.

package calour

(downloads) docker_calour



depends biom-format:

depends docrep:

depends ipython:

depends ipywidgets:

depends matplotlib-base:


depends numpy:

depends pandas:

depends pyqt:


depends python:


depends scikit-bio:


depends scikit-learn:

depends scipy:

depends statsmodels:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install calour

and update with::

   mamba update calour

To create a new environment, run:

mamba create --name myenvname calour

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `calour/tags`_ for valid values for ``<tag>``)

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