recipe yacht

YACHT is a mathematically rigorous hypothesis test for the presence or absence of organisms in a metagenomic sample, based on average nucleotide identity (ANI).

Homepage:

https://github.com/KoslickiLab/YACHT

Documentation:

https://github.com/KoslickiLab/YACHT/wiki

License:

MIT / MIT

Recipe:

/yacht/meta.yaml

Links:

doi: 10.1101/2023.04.18.537298

package yacht

(downloads) docker_yacht

versions:

1.2.2-0,  1.2.1-0,  1.1.0-0,  1.0-0

depends biom-format:

depends codecov:

depends loguru:

depends numpy:

depends openpyxl:

depends pandas:

depends pytaxonkit:

depends pytest:

depends pytest-cov:

depends python:

>3.6

depends scikit-learn:

depends scipy:

depends sourmash:

>=4.8.3,<5

depends sourmash_plugin_branchwater:

depends tqdm:

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 yacht

and update with::

   mamba update yacht

To create a new environment, run:

mamba create --name myenvname yacht

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/yacht:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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