recipe bioconductor-flowsorted.cordbloodcombined.450k

Illumina 450k/EPIC data on FACS and MACS umbilical blood cells

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/FlowSorted.CordBloodCombined.450k.html

License:

GPL-3

Recipe:

/bioconductor-flowsorted.cordbloodcombined.450k/meta.yaml

Raw data objects to be used for umbilical cord blood cell proportion estimation in minfi and similar packages. The FlowSorted.CordBloodCombined.450k object is based in samples assayed by Bakulski et al, Gervin et al., de Goede et al., and Lin et al.

package bioconductor-flowsorted.cordbloodcombined.450k

(downloads) docker_bioconductor-flowsorted.cordbloodcombined.450k

versions:
1.18.0-0,  1.16.0-0,  1.14.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.6.0-0,  1.4.1-0, 

1.18.0-0,  1.16.0-0,  1.14.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.6.0-0,  1.4.1-0,  1.2.0-0,  1.0.0-1

depends bioconductor-annotationhub:

>=3.10.0,<3.11.0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-illuminahumanmethylation450kanno.ilmn12.hg19:

>=0.6.0,<0.7.0

depends bioconductor-illuminahumanmethylationepicanno.ilm10b4.hg19:

>=0.6.0,<0.7.0

depends bioconductor-minfi:

>=1.48.0,<1.49.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

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-flowsorted.cordbloodcombined.450k

and update with::

   mamba update bioconductor-flowsorted.cordbloodcombined.450k

To create a new environment, run:

mamba create --name myenvname bioconductor-flowsorted.cordbloodcombined.450k

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-flowsorted.cordbloodcombined.450k:<tag>

(see `bioconductor-flowsorted.cordbloodcombined.450k/tags`_ for valid values for ``<tag>``)

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