selSubsetExprs: Select differentially expressed miRNAs or mRNAs

In mariavica/mircomb: An R package for analyzing miRNA-mRNA interactions

Description

Select differentially expressed miRNAs or mRNAs, according to your criteria

Usage

selSubsetExprs(obj, dataset, FC = NA, logratio = foldchange2logratio(FC),
  slope = NA , pval = NA, adj.pval = NA, min.meanExp = NA,
  up = FALSE, dw = FALSE)

Arguments

obj	a corObject
dataset	"miRNA" or "mRNA".
FC	minimum absolute FoldChange of selected miRNAs or mRNAs
logratio	minimum absolute logratio cutoff of selected miRNAs or mRNAs
slope	for longitudinal-regression analysis, minimum absolute slope of selected miRNAs or mRNAs
pval	maximum p value of selected miRNAs or mRNAs
adj.pval	maximum adjusted p value of selected miRNAs or mRNAs
min.meanExp	minimum mean expression of selected miRNAs or mRNAs
up	TRUE or FALSE. Select only upregulated miRNAs or mRNAs.
dw	TRUE or FALSE. Select only upregulated miRNAs or mRNAs.

Value

A data.frame with the selected differentially expressed miRNAs or mRNAs and their characteristics.

See Also

writeCsv, writeExcel, writeSif

Examples

data(data.obj)
selSubsetExprs(data.obj, "miRNA", adj.pval=0.05, FC=1.5)
selSubsetExprs(data.obj, "mRNA", adj.pval=0.05, up=TRUE)

mariavica/mircomb documentation built on Feb. 3, 2020, 2:28 a.m.