recipe bioconductor-genomeintervals

Operations on genomic intervals

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-genomeintervals/meta.yaml

Links:

biotools: genomeintervals, doi: 10.1038/nmeth.3252

This package defines classes for representing genomic intervals and provides functions and methods for working with these. Note: The package provides the basic infrastructure for and is enhanced by the package 'girafe'.

package bioconductor-genomeintervals

versions:

1.62.0-0,  1.58.0-0,  1.56.0-0,  1.54.0-0,  1.50.0-0,  1.48.0-0,  1.46.0-1,  1.46.0-0,  1.43.0-0, 

1.62.0-0,  1.58.0-0,  1.56.0-0,  1.54.0-0,  1.50.0-0,  1.48.0-0,  1.46.0-1,  1.46.0-0,  1.43.0-0,  1.42.0-0,  1.40.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-0

depends bioconductor-biocgenerics:

>=0.52.0,<0.53.0

depends bioconductor-genomeinfodb:

>=1.42.0,<1.43.0

depends bioconductor-genomicranges:

>=1.58.0,<1.59.0

depends bioconductor-iranges:

>=2.40.0,<2.41.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends r-base:

>=4.4,<4.5.0a0

depends r-intervals:

>=0.14.0

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 bioconductor-genomeintervals

and update with::

   mamba update bioconductor-genomeintervals

To create a new environment, run:

mamba create --name myenvname bioconductor-genomeintervals

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-genomeintervals:<tag>

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

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