recipe bioconductor-lumi

BeadArray Specific Methods for Illumina Methylation and Expression Microarrays

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/lumi.html

License:

LGPL (>= 2)

Recipe:

/bioconductor-lumi/meta.yaml

Links:

biotools: lumi

The lumi package provides an integrated solution for the Illumina microarray data analysis. It includes functions of Illumina BeadStudio (GenomeStudio) data input, quality control, BeadArray-specific variance stabilization, normalization and gene annotation at the probe level. It also includes the functions of processing Illumina methylation microarrays, especially Illumina Infinium methylation microarrays.

package bioconductor-lumi

Versions:

2.50.0-0,  2.46.0-1,  2.44.0-0,  2.42.0-1,  2.42.0-0,  2.40.0-0,  2.38.0-0,  2.36.0-1,  2.34.0-0, 

2.50.0-0,  2.46.0-1,  2.44.0-0,  2.42.0-1,  2.42.0-0,  2.40.0-0,  2.38.0-0,  2.36.0-1,  2.34.0-0,  2.32.0-0,  2.30.0-0

Depends:

• bioconductor-affy >=1.76.0,<1.77.0

• bioconductor-annotate >=1.76.0,<1.77.0

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-methylumi >=2.44.0,<2.45.0

• bioconductor-preprocesscore >=1.60.0,<1.61.0

• r-base >=4.2,<4.3.0a0

• r-dbi

• r-kernsmooth

• r-lattice

• r-mass

• r-mgcv >=1.4-0

• r-nleqslv

• r-rsqlite

Required By:

• bioconductor-mineica

• bioconductor-lumimouseidmapping

• bioconductor-maqcsubsetilm

• bioconductor-watermelon

• bioconductor-ffpe

• bioconductor-lumiratidmapping

• bioconductor-mvoutdata

• bioconductor-arraymvout

• bioconductor-ffpeexampledata

• bioconductor-lumibarnes

• bioconductor-maqcsubset

• bioconductor-lumihumanidmapping

• bioconductor-icheck

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-lumi

and update with:

conda update bioconductor-lumi

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-lumi:<tag>

(see bioconductor-lumi/tags for valid values for <tag>)

Download stats

Link to this page

Render an 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-lumi/README.html)