plotReceptLoss {receptLoss} | R Documentation |
This function allows you to plot histograms of tumor and adj normal data
plotReceptLoss(exprMatrNml, exprMatrTum, rldf, geneName, addToTitle = "", clrs)
exprMatrNml |
A matrix of expression values from normal tissue. Each row is a gene, and each column is a patient or sample. Genes should be in same order as exprMatrTum. |
exprMatrTum |
A matrix of expression values from tumor tissue. Each row is a gene, and each column is a patient or sample. Genes should be in same order as exprMatrNml. |
rldf |
The dataframe output from running the receptLoss function |
geneName |
The name of the gene to plot. The name of the gene should correspond to a row name in both exprMatrNml and exprMatrTum matrices. |
addToTitle |
A string that can be added to the title, which includes the gene name. |
clrs |
Vector of length 2 containing colors to use for plot |
returns an object of class 'ggplot'
exprMatrNml <- matrix(abs(rnorm(100, mean=2)), nrow=10) exprMatrTum <- matrix(abs(rnorm(100)), nrow=10) geneNames <- paste0(letters[seq_len(nrow(exprMatrNml))], seq_len(nrow(exprMatrNml))) rownames(exprMatrNml) <- rownames(exprMatrTum) <- geneNames nSdBelow <- 2 minPropPerGroup <- .2 rl <- receptLoss(exprMatrNml, exprMatrTum, nSdBelow, minPropPerGroup) clrs <- c("#E78AC3", "#8DA0CB") plotReceptLoss(exprMatrNml, exprMatrTum, rl, geneName="g7", clrs=clrs)