bioconductor-missmethyl

downloads

Normalisation and testing for differential variability and differential methylation for data from Illumina’s Infinium HumanMethylation450 array. The normalisation procedure is subset-quantile within-array normalisation (SWAN), which allows Infinium I and II type probes on a single array to be normalised together. The test for differential variability is based on an empirical Bayes version of Levene’s test. Differential methylation testing is performed using RUV, which can adjust for systematic errors of unknown origin in high-dimensional data by using negative control probes. Gene ontology analysis is performed by taking into account the number of probes per gene on the array.

Home http://bioconductor.org/packages/3.7/bioc/html/missMethyl.html
Versions 1.14.0, 1.12.0
License GPL-2
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-missmethyl
Links biotools: missmethyl

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-missmethyl

and update with:

conda update bioconductor-missmethyl

docker

A Docker container is available at https://quay.io/repository/biocontainers/bioconductor-missmethyl.