DOI: 10.18129/B9.bioc.GeoDiff    

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

Count model based differential expression and normalization on GeoMx RNA data

Bioconductor version: Development (3.17)

A series of statistical models using count generating distributions for background modelling, feature and sample QC, normalization and differential expression analysis on GeoMx RNA data. The application of these methods are demonstrated by example data analysis vignette.

Author: Nicole Ortogero [cre], Lei Yang [aut], Zhi Yang [aut]

Maintainer: Nicole Ortogero <nortogero at>

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


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Workflow_WTA
PDF   Reference Manual


biocViews DifferentialExpression, GeneExpression, Normalization, Software
Version 1.5.0
In Bioconductor since BioC 3.14 (R-4.1) (1 year)
License MIT + file LICENSE
Depends R (>= 4.1.0), Biobase
Imports Matrix, robust, plyr, lme4, Rcpp (>=, withr, methods, graphics, stats, testthat, GeomxTools, NanoStringNCTools
LinkingTo Rcpp, RcppArmadillo, roptim
Suggests knitr, rmarkdown, dplyr
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package GeoDiff_1.5.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone
Source Repository (Developer Access) 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: