# Graphical Display of Pairwise Linkage Disequilibria Between SNPs

## Documentation for package ‘LDheatmap’ version 1.0-4

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Code demos. Use demo() to run them.

## Help Pages

CEUData | Example data set for LDheatmap
CEUDist | Example data set for LDheatmap
CEUSNP | Example data set for LDheatmap
CHBJPTData | Example of data set for LDHeatmap
CHBJPTDist | Example of data set for LDHeatmap
CHBJPTSNP | Example of data set for LDHeatmap
GIMAP5 | Example data set for LDHeatmap
GIMAP5.CEU | Example data set for LDheatmap
hapmapCEU | Example data set for LDheatmap
hapmapCHB | Example of data set for LDHeatmap
hapmapJPT | Example of data set for LDHeatmap
LDheatmap | This function produces a pairwise LD plot.
LDheatmap.addGenes | Add gene plot to an LDheatmap object.
LDheatmap.addGrob | Add a graphical object to an LDheatmap plot
LDheatmap.addRecombRate | Add recombination rate plot to an LD heat map.
LDheatmap.addScatterplot | Add a scatter plot to an LDheatmap object
LDheatmap.highlight | Highlight a genetic region in the linkage disequilibrium heat map
LDheatmap.marks | Plots a symbol in the centers of cells of the heat map image
plotGenes | Plot genes from a specified region of the human genome.
recombRate | Produce recombination rate plot.
vcfR2SnpMatrix | Extract genotype information from a vcfR object