recipe bioconductor-cllmethylation

Methylation data of primary CLL samples in PACE project






The package includes DNA methylation data for the primary Chronic Lymphocytic Leukemia samples included in the Primary Blood Cancer Encyclopedia (PACE) project. Raw data from the 450k DNA methylation arrays is stored in the European Genome-Phenome Archive (EGA) under accession number EGAS0000100174. For more information concerning the project please refer to the paper "Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al., J. Clin. Invest. (2018) and R/Bioconductor package BloodCancerMultiOmics2017.

package bioconductor-cllmethylation

(downloads) docker_bioconductor-cllmethylation



depends bioconductor-data-packages:


depends bioconductor-experimenthub:


depends bioconductor-summarizedexperiment:


depends curl:

depends r-base:




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-cllmethylation

and update with::

   mamba update bioconductor-cllmethylation

To create a new environment, run:

mamba create --name myenvname bioconductor-cllmethylation

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<tag>

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

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