recipe bioconductor-plier

Implements the Affymetrix PLIER algorithm

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/plier.html

License:

GPL (>= 2)

Recipe:

/bioconductor-plier/meta.yaml

Links:

biotools: plier, doi: 10.1038/nmeth.3252

The PLIER (Probe Logarithmic Error Intensity Estimate) method produces an improved signal by accounting for experimentally observed patterns in probe behavior and handling error at the appropriately at low and high signal values.

package bioconductor-plier

(downloads) docker_bioconductor-plier

versions:
1.72.0-0,  1.70.0-0,  1.68.0-1,  1.68.0-0,  1.64.0-2,  1.64.0-1,  1.64.0-0,  1.62.0-0,  1.60.0-1, 

1.72.0-0,  1.70.0-0,  1.68.0-1,  1.68.0-0,  1.64.0-2,  1.64.0-1,  1.64.0-0,  1.62.0-0,  1.60.0-1,  1.60.0-0,  1.58.0-0,  1.56.0-0,  1.54.0-1,  1.52.0-0,  1.50.0-0,  1.48.0-0,  1.46.0-0

depends bioconductor-affy:

>=1.80.0,<1.81.0

depends bioconductor-affy:

>=1.80.0,<1.81.0a0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biobase:

>=2.62.0,<2.63.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

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-plier

and update with::

   mamba update bioconductor-plier

To create a new environment, run:

mamba create --name myenvname bioconductor-plier

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-plier:<tag>

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

Download stats

Link to this page

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

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-plier/README.html)