recipe cats-rb

Reference-based transcriptome assembly quality assessment tool.

Homepage:

https://github.com/bodulic/CATS-rb

Documentation:

https://github.com/bodulic/CATS-rb/blob/main/README.md

License:

MIT

Recipe:

/cats-rb/meta.yaml

CATS-rb evaluates transcriptome assemblies using the reference genome of the corresponding species.

package cats-rb

(downloads) docker_cats-rb

versions:

1.0.0-0

depends bash:

depends bioconductor-complexheatmap:

depends bioconductor-genomeinfodb:

depends bioconductor-genomicdistributions:

depends bioconductor-genomicranges:

depends coreutils:

depends gawk:

depends pandoc:

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

depends r-egg:

depends r-ggdist:

depends r-ggplot2:

depends r-ggvenndiagram:

depends r-igraph:

depends r-matrix:

depends r-rmarkdown:

depends r-upsetr:

depends sed:

depends spaln:

>=3.0.0

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 cats-rb

and update with::

   mamba update cats-rb

To create a new environment, run:

mamba create --name myenvname cats-rb

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/cats-rb:<tag>

(see `cats-rb/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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