dot-tTest: T-testing Between Plus and Minus Genes

In JRC-COMBINE/PhysioSpaceMethods: Creates and uses physio spaces as a dimension reduction mapping

Description

.tTest is an internal function used by calculatePhysioMap. It does a t-test between iplus and iminus indexed genes in ReferencesJ.

Usage

.tTest(ReferencesJ, iplus, iminus, STATICResponse)

Arguments

ReferencesJ	Vector of gene expressions to do statistical test on.
iplus	Index of first group of genes for statistical testing.
iminus	Index of second group of genes for statistical testing.
STATICResponse	Same STATICResponse as in calculatePhysioMap. Check calculatePhysioMap's help for more info.

Value

Log2 signed p value of t-test if STATICResponse==FALSE, t-test statisitic if STATICResponse==TRUE.

Examples

## Not run: 
 SimulatedReferenceSpace <-
   matrix(
     rnorm(n = 100000, mean = 0, sd = 100),
     ncol = 10,
     dimnames = list(1:10000, 11:20)
   )
 PhysioSpaceMethods:::.tTest(
   ReferencesJ = SimulatedReferenceSpace[, 4],
   iplus = sample(
     1:nrow(SimulatedReferenceSpace),
     size = nrow(SimulatedReferenceSpace) / 20
   ),
   iminus = sample(
     1:nrow(SimulatedReferenceSpace),
     size = nrow(SimulatedReferenceSpace) / 20
   ),
   STATICResponse = FALSE
 )

## End(Not run)

JRC-COMBINE/PhysioSpaceMethods documentation built on July 27, 2021, 12:53 p.m.