recipe treecluster

Identify clusters in phylogenetic trees based on a distance threshold and other constraints

Homepage:

https://github.com/niemasd/TreeCluster

License:

GPL3 / GPL-3.0-only

Recipe:

/treecluster/meta.yaml

Links:

doi: 10.1371/journal.pone.0221068

package treecluster

(downloads) docker_treecluster

versions:

1.0.4-0,  1.0.3-0,  1.0.2-0,  1.0.1-0

depends niemads:

depends python:

depends treeswift:

requirements:

Installation

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 treecluster

and update with::

   mamba update treecluster

To create a new environment, run:

mamba create --name myenvname treecluster

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 quay.io/biocontainers/treecluster:<tag>

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

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