recipe bioconductor-rfarm

An R interface to the Rfam database

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/rfaRm.html

License:

GPL-3

Recipe:

/bioconductor-rfarm/meta.yaml

rfaRm provides a client interface to the Rfam database of RNA families. Data that can be retrieved include RNA families, secondary structure images, covariance models, sequences within each family, alignments leading to the identification of a family and secondary structures in the dot-bracket format.

package bioconductor-rfarm

versions:

1.14.0-0,  1.11.2-0,  1.10.0-0,  1.6.0-0,  1.4.0-0,  1.2.1-0,  1.2.0-0,  1.0.0-0

depends bioconductor-biostrings:

>=2.70.0,<2.71.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

depends r-httr:

depends r-jsonlite:

depends r-magick:

depends r-rsvg:

depends r-rvest:

depends r-stringi:

depends r-xml2:

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 bioconductor-rfarm

and update with::

   mamba update bioconductor-rfarm

To create a new environment, run:

mamba create --name myenvname bioconductor-rfarm

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-rfarm:<tag>

(see `bioconductor-rfarm/tags`_ for valid values for ``<tag>``)

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