spearman.dist {bioDist}R Documentation

Spearman correlational distance

Description

Calculate pairwise Spearman correlational distances, i.e. 1-SPEAR or 1-|SPEAR|, for all rows of a matrix and return a dist object.

Usage

spearman.dist(x, ...)

Arguments

x n by p matrix or ExpressionSet; if x is an ExpressionSet, then the function uses its 'exprs' slot.
... arguments passed to spearman.dist:
abs
if TRUE, then 1-|SPEAR| else 1-SPEAR; default is TRUE.
diag
if TRUE, then the diagonal of the distance matrix will be displayed; default is FALSE.
upper
if TRUE, then the upper triangle of the distance matrix will be displayed; default is FALSE.
sample
for the ExpressionSet method: if TRUE (the default), then distances are computed between samples.

Details

We call cor with the appropriate arguments to compute the row-wise correlations.

Value

One minus the Spearman correlation, between rows of x, are returned, as an instance of the dist class.

Author(s)

Beiying Ding

See Also

cor.dist, tau.dist, euc, man, KLdist.matrix, KLD.matrix, mutualInfo, dist

Examples

 x <- matrix(rnorm(200), nrow = 5)
 spearman.dist(x)

[Package bioDist version 1.14.0 Index]