plotConcordance: Generate concordance figure of targets based on user provided...

In Nanostring-Biostats/GeomxTools: NanoString GeoMx Tools

Generate concordance figure of targets based on user provided factors

Description

Upper panels are the concordance plot. Lower panels are the standard deviation of the log2-ratios between the targets

Usage

plotConcordance(targetList, object, plotFactor)

Arguments

targetList	names of targets to plot concordance, normally IgGs.
object	name of the object class to subset NanoStringGeoMxSet, use the NanoStringGeoMxSet class
plotFactor	segment factor to color the plot by

Examples

proteinData <- readRDS(file= system.file("extdata","DSP_Proteogenomics_Example_Data", 
"proteinData.rds", package = "GeomxTools"))

igg.names <- iggNames(proteinData)

protSegTypeFig <- plotConcordance(targetList = igg.names, object = proteinData, 
                                  plotFactor = "Segment_Type")
protSegTypeFig

Nanostring-Biostats/GeomxTools documentation built on Dec. 17, 2024, 11:50 a.m.