slcor: Sliding window correlation

In ldsep: Linkage Disequilibrium Shrinkage Estimation for Polyploids

Sliding window correlation

Description

Calculates the pairwise Pearson correlation between all columns within a fixed window size (win) using the use = "pairwise.complete.obs" option from cor(). That is, the correlation between each pair of variables is computed using all complete pairs of observations on those variables.

Usage

slcor(x, win = 1L)

Arguments

x	A numeric matrix. The variables index the columns.
win	The size of the window. Defaults to 1.

Value

A correlation matrix with only the observations within a window containing calculated correlations.

Author(s)

David Gerard

Examples

set.seed(1)
n <- 10
p <- 100
xmat <- matrix(rnorm(n * p), ncol = n)
xmat[sample(n * p, size = 30)] <- NA_real_
slcor(xmat, win = 2)

ldsep documentation built on Oct. 19, 2022, 1:08 a.m.