checkTissuesToMerge: Check tissues to merge based on gene expression profile

In QuackenbushLab/yarn: YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization

Check tissues to merge based on gene expression profile

Description

Check tissues to merge based on gene expression profile

Usage

checkTissuesToMerge(obj, majorGroups, minorGroups, filterFun = NULL,
  plotFlag = TRUE, ...)

Arguments

obj	ExpressionSet object.
majorGroups	Column name in the phenoData slot that describes the general body region or site of the sample.
minorGroups	Column name in the phenoData slot that describes the specific body region or site of the sample.
filterFun	Filter group specific genes that might disrupt PCoA analysis.
plotFlag	TRUE/FALSE whether to plot or not
...	Parameters that can go to checkMisAnnotation

Value

CMDS Plots of the majorGroupss colored by the minorGroupss. Optional matrix of CMDS loadings for each comparison.

See Also

checkTissuesToMerge

Examples

data(skin)
checkTissuesToMerge(skin,'SMTS','SMTSD')

QuackenbushLab/yarn documentation built on March 7, 2024, 3:53 p.m.