recipe bioconductor-turbonorm

A fast scatterplot smoother suitable for microarray normalization

Homepage:

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

License:

LGPL

Recipe:

/bioconductor-turbonorm/meta.yaml

Links:

biotools: turbonorm

A fast scatterplot smoother based on B-splines with second-order difference penalty. Functions for microarray normalization of single-colour data i.e. Affymetrix/Illumina and two-colour data supplied as marray MarrayRaw-objects or limma RGList-objects are available.

package bioconductor-turbonorm

versions:

1.50.0-0,  1.48.0-0,  1.46.0-1,  1.46.0-0,  1.42.0-2,  1.42.0-1,  1.42.0-0,  1.40.0-0,  1.38.0-1, 

1.50.0-0,  1.48.0-0,  1.46.0-1,  1.46.0-0,  1.42.0-2,  1.42.0-1,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.26.0-0

depends bioconductor-affy:

>=1.80.0,<1.81.0

depends bioconductor-affy:

>=1.80.0,<1.81.0a0

depends bioconductor-convert:

>=1.78.0,<1.79.0

depends bioconductor-convert:

>=1.78.0,<1.79.0a0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-limma:

>=3.58.1,<3.59.0a0

depends bioconductor-marray:

>=1.80.0,<1.81.0

depends bioconductor-marray:

>=1.80.0,<1.81.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends r-base:

>=4.3,<4.4.0a0

depends r-lattice:

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-turbonorm

and update with::

   mamba update bioconductor-turbonorm

To create a new environment, run:

mamba create --name myenvname bioconductor-turbonorm

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-turbonorm:<tag>

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

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