Description Usage Arguments Value Examples
View source: R/all_functions.R
Visualization of the genome wide chromosome pairwise relative strength of epistatic interaction, ranging from 1 (strongest) to 0 (weakest). The strength is based on the 90th percentile quantile (default) of stastistical significance of epistatic interaction between all interactions in each chromosome pair, scaled to 1 to 0.
1 | genome.interaction(tped,correlations,quantile=0.9)
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tped |
The tped file used in generate.genotype(). The SNPs must be sorted by chromosome, matching the order of the SNPs in the correlation matrices. |
correlations |
List of epistatic correlations and p-values genrated by epistatic.correlation() |
quantile |
Number from 0 to 1 indicating which quantile to base the visualization on. |
Outputs a plot visualizing the chromosome interaction map
1 | genome.interaction(tped,correlations)
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