plot_modules_phenotype: Heatmap of modules phenotpic association

In Kumquatum/GWENA: Pipeline for augmented co-expression analysis

Heatmap of modules phenotpic association

Description

Plot a heatmap of the correlation between all modules and the phenotypic variables and the p value associated

Usage

plot_modules_phenotype(
  modules_phenotype,
  pvalue_th = 0.05,
  text_angle = 90,
  ...
)

Arguments

modules_phenotype	list, data.frames of correlation and pvalue associated
pvalue_th	float, threshold in ]0;1[ under which module will be considered as significantly associated
text_angle	integer, angle in [0,360] of the x axis labels.
...	any other parameter you can provide to ggplot2::theme

Value

A ggplot object representing a heatmap with phenotype association and related pvalues

Examples

eigengene_mat <- data.frame(mod1 = rnorm(20, 0.1, 0.2),
mod2 = rnorm(20, 0.2, 0.2))
phenotype_mat <- data.frame(phenA = sample(c("X", "Y", "Z"), 20,
                            replace = TRUE),
                            phenB = sample(c("U", "V"), 20,
                            replace = TRUE),
                            stringsAsFactors = FALSE)
association <- associate_phenotype(eigengene_mat, phenotype_mat)
plot_modules_phenotype(association)

Kumquatum/GWENA documentation built on July 7, 2023, 3:41 p.m.