recipe bioconductor-gse159526

Placental cell DNA methylation data from GEO accession GSE159526

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/GSE159526.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-gse159526/meta.yaml

19 term and 9 first trimester placental chorionic villi and matched cell-sorted samples ran on Illumina HumanMethylationEPIC DNA methylation microarrays. This data was made available on GEO accession [GSE159526](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159526). Both the raw and processed data has been made available on \code{ExperimentHub}. Raw unprocessed data formatted as an RGChannelSet object for integration and normalization using minfi and other existing Bioconductor packages. Processed normalized data is also available as a DNA methylation \code{matrix}, with a corresponding phenotype information as a \code{data.frame} object.

package bioconductor-gse159526

(downloads) docker_bioconductor-gse159526

versions:

1.12.0-0,  1.8.0-0,  1.6.0-0,  1.3.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-data-packages:

>=20241103

depends curl:

depends r-base:

>=4.4,<4.5.0a0

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-gse159526

and update with::

   mamba update bioconductor-gse159526

To create a new environment, run:

mamba create --name myenvname bioconductor-gse159526

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-gse159526:<tag>

(see `bioconductor-gse159526/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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