recipe bioconductor-methylseqdata

Collection of Public DNA Methylation Sequencing Datasets

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/MethylSeqData.html

License:

CC0

Recipe:

/bioconductor-methylseqdata/meta.yaml

Base-level (i.e. cytosine-level) counts for a collection of public bisulfite-seq datasets (e.g., WGBS and RRBS), provided as SummarizedExperiment objects with sample- and base-level metadata.

package bioconductor-methylseqdata

versions:

1.12.0-0,  1.10.0-0,  1.8.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-genomeinfodb:

>=1.38.0,<1.39.0

depends bioconductor-genomicranges:

>=1.54.0,<1.55.0

depends bioconductor-hdf5array:

>=1.30.0,<1.31.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-rhdf5:

>=2.46.0,<2.47.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

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-methylseqdata

and update with::

   mamba update bioconductor-methylseqdata

To create a new environment, run:

mamba create --name myenvname bioconductor-methylseqdata

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-methylseqdata:<tag>

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

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