recipe cladeomatic

Clade-O-Matic: Automatic recognition of population structures based on canonical SNPs

Homepage:

https://github.com/phac-nml/cladeomatic

License:

APACHE / Apache-2.0

Recipe:

/cladeomatic/meta.yaml

package cladeomatic

versions:

0.1.1-0

depends biopython:

1.81

depends dendropy:

4.5.2

depends deprecated:

1.2.13

depends ete3:

3.1.2

depends jellyfish:

depends matplotlib-base:

3.7.1

depends numpy:

>=1.23.0

depends pandas:

>=2.0.0

depends plotly:

5.14.1

depends psutil:

depends pyahocorasick:

1.4.4

depends python:

>=3.9,<3.10

depends ray-default:

depends scikit-learn:

>=1.1.1

depends scipy:

>=1.10.1

depends six:

1.16.0

depends snp-sites:

2.5.1

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 cladeomatic

and update with::

   mamba update cladeomatic

To create a new environment, run:

mamba create --name myenvname cladeomatic

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/cladeomatic:<tag>

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

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