show.ld: show.ld

In chr1swallace/GUESSFM: Using GUESS for Fine Mapping

Description

Calculate D' and R^2 for a SnpMatrix object and display as a heatmap

Usage

show.ld(X, snps = colnames(X), samples = rownames(X), lines.limit = 20)

Arguments

X	a SnpMatrix object
snps	optional character vector of column names of X (SNPs) for which LD should be calculated
samples	optional character vector of row names of X (Samples) for which LD should be calculated
lines.limit	draw faint lines to make separation between SNPs clearer if the number of SNPs is < lines.limit

Details

Side effect: displays plot on current graphics device

Value

invisibly returns matrix with D' in upper.tri() entries and R^2 in lower.tri() entries

Author(s)

Chris Wallace

chr1swallace/GUESSFM documentation built on May 13, 2019, 6:17 p.m.