printFeatures: Print features into a table.

In PAA: PAA (Protein Array Analyzer)

Description

Creates a table containing the given features (e.g., the selected biomarker candidate panel).

Usage

printFeatures(features = NULL, elist = NULL, output.path = NULL)

Arguments

features	vector containing "BRC"-IDs (mandatory).
elist	EListRaw or EList object containing all intensity data (mandatory).
output.path	string indicating the folder where the table will be saved as a txt file (optional).

Details

Creates a table containing the given features (e.g., the selected biomarker candidate panel) as well as additional information. When output.path is defined this table will be saved in a txt file ("candidates.txt").

Value

Table containing the given features.

Author(s)

Michael Turewicz, [e-mail]

Examples

cwd <- system.file(package="PAA")
load(paste(cwd, "/extdata/Alzheimer.RData", sep=""))
#elist <- elist[elist$genes$Block < 10,]

#c1 <- paste(rep("AD",20), 1:20, sep="")
#c2 <- paste(rep("NDC",20), 1:20, sep="")

#pre.sel.results <- preselect(elist=elist, columns1=c1, columns2=c2, label1="AD",
# label2="NDC", discard.threshold=0.1, fold.thresh=1.9, discard.features=TRUE,
# method="tTest")
#elist <- elist[-pre.sel.results$discard,]

#selectFeatures.results <- selectFeatures(elist,n1=20,n2=20,label1="AD",
# label2="NDC",selection.method="rf.rfe",preselection.method="none",subruns=2,
# k=2,candidate.number=20,method="frequency")

load(paste(cwd, "/extdata/selectFeaturesResultsFreq.RData", sep="")) 
printFeatures(features=selectFeatures.results$features, elist=elist)

PAA documentation built on Nov. 8, 2020, 8:30 p.m.