dysReg: Analyze dysregulated (protruding) events

In Huang-lab/oppti: Outlier Protein and Phosphosite Target Identifier

Analyze dysregulated (protruding) events

Description

For each marker processed, draws a scatter plot of matching values of observed vs imputed expressions.

Usage

dysReg(dat, dat.imp, marker.proc.list = NULL, verbose = FALSE)

Arguments

dat	an object of log2-normalized protein (or gene) expressions, containing markers in rows and samples in columns.
dat.imp	the imputed data that putatively represents the expressions of the markers in the (matched) normal states.
marker.proc.list	character array, the row names of the data to be processed for dysregulation.
verbose	logical, to show progress of the algorithm

Value

samples' distances to regression line (i.e., dysregulation) on the scatter plots.

the scatter plots.

Examples

dat = setNames(as.data.frame(matrix(1:(5*10),5,10),
row.names = paste('marker',1:5,sep='')), paste('sample',1:10,sep=''))
dat.imp = artImpute(dat, ku=2)
result = dysReg(dat, dat.imp)

Huang-lab/oppti documentation built on March 26, 2023, 12:52 p.m.