PlotEnrich {brainImageR}R Documentation

PlotEnrich

Description

A quick plot to assess the enrichments returned from testEnrich. Gene overlap calculated by random chance is plotted on the x-axis and the gene overlap from the query set on the y-axis. Each dot represents an individual microdissected tissue. Note that the signficance estimate is only dependent on the randomly generated overlaps if the p-values were calculated with the bootstrap procedure.

Usage

PlotEnrich(boot)

Arguments

boot

Comp object returned from the testEnrich function

Value

Spatial enrichment plot

Examples

#brainImageR:::loadworkspace()
##First put together a gene list, or load in the default vth dataset
data(vth)
##Calculate the spatial enrichment
#composite <- SpatialEnrichment(vth, 20, "developing")
#tissueExp1 <- composite@tissueExp1
#random.matrix <- composite@random.matrix
##Calculate the significance estimates
#boot <- testEnrich(composite)
#PlotEnrich(boot)


[Package brainImageR version 1.0.0 Index]