gtable_ld {snplinkage} | R Documentation |
Gtable of linkage disequilibrium and chromosomic positions
Description
Creates a gtable of linkage disequilibrium and chromosomic positions ggplots. A biplot_subset parameter is available to add a second linkage disequibrium ggplot to visualize the effect of a SNP selection.
Usage
gtable_ld(
df_ld,
df_snp,
biplot_subset = NULL,
labels_colname = NULL,
diamonds = length(unique(df_ld$SNP_A)) < 40,
point_size = ifelse(is.null(biplot_subset), 120, 80)/sqrt(nrow(df_ld)),
title = "",
title_biplot = "",
...
)
Arguments
df_ld |
Data frame returned by snprelate_ld |
df_snp |
SNP annotations with columns snpID and position |
biplot_subset |
SNP indexes of the subset for the second ld plot |
labels_colname |
Column name of df_snp to use as SNP labels |
diamonds |
Display the values as diamonds or as points Default is TRUE for less than 40 SNPs. |
point_size |
Size for geom_point. Ignored if diamonds is TRUE. |
title |
Plot title |
title_biplot |
Optional biplot title |
... |
Passed to ggplot_ld |
Value
gtable of ggplots
[Package snplinkage version 1.0.0 Index]