assocplot() take a data frame of associations, return plot of the associations
from assoc() (ggplot2 object or list of ggplot object)
assocplot(score_table = NULL, axis = "vertical", pval = FALSE)return either:
a ggplot object representing the association results.
a list of two ggplot objects, accessible by $continuous_phenotype and $discrete_phenotype, if there are both Continuous Phenotypes and Discrete Phenotypes (i.e. "Categorical" or "Cases/Controls")
a dataframe with association results with at least the following columns:
PGS: the name of the PGS
Phenotype: the name of Phenotype
Phenotype_type: either 'Continuous', 'Ordered Categorical', 'Categorical' or 'Cases/Controls'
Effect: if Phenotype_type is Continuous, it represents the Beta coefficient of linear regression, OR of logistic regression otherwise
lower_CI: lower confidence interval of the related Effect (Beta or OR)
upper_CI: upper confidence interval of the related Effect (Beta or OR)
P_value: associated P-value
a character, 'horizontal' or "vertical" (the default) specifying the rotation
of the plot
a parameter specifying information on how to display P-value
if pval is FALSE, P-value does not appear on the plot
if pval is TRUE, P-value always appears next to the signal
if pval is a number, P-value will appear if the P-value is inferior to this given number.