recipe bioconductor-geneplast.data

Input data for the geneplast package via AnnotationHub

Homepage:

https://bioconductor.org/packages/3.20/data/annotation/html/geneplast.data.html

License:

Artistic-2.0

Recipe:

/bioconductor-geneplast.data/meta.yaml

The package geneplast.data provides datasets from different sources via AnnotationHub to use in geneplast pipelines. The datasets have species, phylogenetic trees, and orthology relationships among eukaryotes from different orthologs databases.

package bioconductor-geneplast.data

versions:

0.99.9-0,  0.99.7-0,  0.99.6-2,  0.99.6-1,  0.99.6-0,  0.99.4-0,  0.99.2-2,  0.99.2-1,  0.99.2-0

depends bioconductor-biocfilecache:

>=2.14.0,<2.15.0

depends bioconductor-data-packages:

>=20241103

depends bioconductor-geneplast:

>=1.32.0,<1.33.0

depends bioconductor-treeio:

>=1.30.0,<1.31.0

depends curl:

depends r-ape:

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-igraph:

depends r-purrr:

depends r-readr:

depends r-tibble:

depends r-tidyr:

requirements:

additional platforms:

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 bioconductor-geneplast.data

and update with::

   mamba update bioconductor-geneplast.data

To create a new environment, run:

mamba create --name myenvname bioconductor-geneplast.data

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/bioconductor-geneplast.data:<tag>

(see `bioconductor-geneplast.data/tags`_ for valid values for ``<tag>``)

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