recipe bioconductor-atsnp

Affinity test for identifying regulatory SNPs

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-atsnp/meta.yaml

atSNP performs affinity tests of motif matches with the SNP or the reference genomes and SNP-led changes in motif matches.

package bioconductor-atsnp

versions:

1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.10.0-2,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.3.0-0, 

1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.10.0-2,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.3.0-0,  1.2.0-0,  1.0.0-1

depends bioconductor-biocfilecache:

>=2.10.0,<2.11.0

depends bioconductor-biocfilecache:

>=2.10.1,<2.11.0a0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0a0

depends bioconductor-bsgenome:

>=1.70.0,<1.71.0

depends bioconductor-bsgenome:

>=1.70.1,<1.71.0a0

depends bioconductor-motifstack:

>=1.46.0,<1.47.0

depends bioconductor-motifstack:

>=1.46.0,<1.47.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

depends r-ggplot2:

depends r-lifecycle:

depends r-rappdirs:

depends r-rcpp:

depends r-testthat:

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-atsnp

and update with::

   mamba update bioconductor-atsnp

To create a new environment, run:

mamba create --name myenvname bioconductor-atsnp

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-atsnp:<tag>

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

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