Graphical Display of Pairwise Linkage Disequilibria Between SNPs


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Documentation for package ‘LDheatmap’ version 1.0-4

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