recipe bioconductor-arraymvout

multivariate outlier detection for expression array QA

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/arrayMvout.html

License:

Artistic-2.0

Recipe:

/bioconductor-arraymvout/meta.yaml

This package supports the application of diverse quality metrics to AffyBatch instances, summarizing these metrics via PCA, and then performing parametric outlier detection on the PCs to identify aberrant arrays with a fixed Type I error rate

package bioconductor-arraymvout

versions:

1.58.0-0,  1.56.0-0,  1.52.0-0,  1.50.0-0,  1.48.0-1,  1.48.0-0,  1.46.0-0,  1.44.0-0,  1.42.0-1, 

1.58.0-0,  1.56.0-0,  1.52.0-0,  1.50.0-0,  1.48.0-1,  1.48.0-0,  1.46.0-0,  1.44.0-0,  1.42.0-1,  1.40.0-0

depends bioconductor-affy:

>=1.78.0,<1.79.0

depends bioconductor-affycontam:

>=1.58.0,<1.59.0

depends bioconductor-biobase:

>=2.60.0,<2.61.0

depends bioconductor-lumi:

>=2.52.0,<2.53.0

depends bioconductor-mdqc:

>=1.62.0,<1.63.0

depends bioconductor-parody:

>=1.58.0,<1.59.0

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-arraymvout

and update with::

   mamba update bioconductor-arraymvout

To create a new environment, run:

mamba create --name myenvname bioconductor-arraymvout

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-arraymvout:<tag>

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

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