panelSummary: Summarize markers in panels.

In hzc363/MetaCyto: MetaCyto: A package for meta-analysis of cytometry data

Description

A function that summarizes markers in cytometry panels.

Usage

panelSummary(panelInfo, folder, cluster = TRUE, plotImage = TRUE,
  width = 20, height = 20)

Arguments

panelInfo	A data frame returned by the collectData function. It should contain all the information outputted by the preprocessing.batch function.
folder	The directory where the output should be written.
cluster	True or False. Used to indicate if the markers and panels should be clustered in the plot.
plotImage	True or False. Used to indicate if a plot summarizing markers in panels should be produced.
width	Used to specify the width of the plot
height	Used to specify the height of the plot

Value

A dataframe describing what markers are in each panel.

Examples

fn=system.file("extdata","",package="MetaCyto")
fn=list.files(fn,pattern="processed_sample",full.names=TRUE)
panel_info=collectData(fn,longform=FALSE)
dir.create("Example_Result")
PS=panelSummary(panel_info,"Example_Result",cluster=FALSE,width=30,height=20)

hzc363/MetaCyto documentation built on July 27, 2020, 2:46 a.m.