DOI: 10.18129/B9.bioc.crossmeta    

This is the development version of crossmeta; for the stable release version, see crossmeta.

Cross Platform Meta-Analysis of Microarray Data

Bioconductor version: Development (3.7)

Implements cross-platform and cross-species meta-analyses of Affymentrix, Illumina, and Agilent microarray data. This package automates common tasks such as downloading, normalizing, and annotating raw GEO data. The user then selects control and treatment samples in order to perform differential expression/pathway analyses for all comparisons. After analysing each contrast seperately, the user can select tissue sources for each contrast and specify any tissue sources that should be grouped for the subsequent meta-analyses. Finally, effect size and pathway meta-analyses can proceed and the results graphically explored.

Author: Alex Pickering

Maintainer: Alex Pickering <alexvpickering at>

Citation (from within R, enter citation("crossmeta")):


To install this package, start R and enter:

## try http:// if https:// URLs are not supported


HTML R Script crossmeta vignette
PDF   Reference Manual


biocViews Annotation, BatchEffect, DifferentialExpression, GUI, GeneExpression, Microarray, OneChannel, Preprocessing, Software, TissueMicroarray, Transcription
Version 1.5.0
In Bioconductor since BioC 3.4 (R-3.3) (1.5 years)
License MIT + file LICENSE
Depends R (>= 3.3)
Imports affy(>= 1.52.0), affxparser(>= 1.46.0), AnnotationDbi(>= 1.36.2), Biobase(>= 2.34.0), BiocGenerics(>= 0.20.0), BiocInstaller(>= 1.24.0), ccmap, DT (>= 0.2), data.table (>= 1.10.4), doParallel (>= 1.0.10), doRNG (>= 1.6), fdrtool (>= 1.2.15), foreach (>= 1.4.3), ggplot2 (>= 2.2.1), GEOquery(>= 2.40.0), limma(>= 3.30.13), matrixStats (>= 0.51.0), metaMA (>= 3.1.2), metap (>= 0.8), miniUI (>= 0.1.1), oligo(>= 1.38.0), pander (>= 0.6.0), plotly (>= 4.5.6), reshape (>= 0.8.6), RColorBrewer (>= 1.1.2), rdrop2 (>= 0.7.0), stringr (>= 1.2.0), sva(>= 3.22.0), shiny (>= 1.0.0), stats (>= 3.3.3)
Suggests knitr, rmarkdown, lydata,, testthat, ccdata
Depends On Me
Imports Me
Suggests Me ccmap
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package crossmeta_1.5.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) crossmeta_1.5.0.tgz
Source Repository git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: