metapredict enables meta-analysis of gene expression using the elastic net (i.e., glmnet). Even if you don’t want or need to run the elastic net, metapredict makes it straightforward to normalize all your microarray data and to map probes from various platforms to Entrez Gene IDs. For technical details, please check out the paper.

Installation

If you use RStudio, go to Tools -> Global Options… -> Packages -> Add… (under Secondary repositories), then enter:

You only have to do this once. Then you can install or update the package by entering:

if (!requireNamespace('BiocManager', quietly = TRUE))
  install.packages('BiocManager')

BiocManager::install('metapredict')

Alternatively, you can install or update the package by entering:

if (!requireNamespace('BiocManager', quietly = TRUE))
  install.packages('BiocManager')

BiocManager::install('metapredict', site_repository = 'https://hugheylab.github.io/drat/')

There’s also a docker image, which has all dependencies installed.

Usage

Go through the vignettes to

For help on using specific functions, consult the reference documentation.