plot_covariates_correlations: Continuous covariates correlations

In pnolain/pmxploit: Pharmacometric tools for post-processing of mixed-effects models for continuous data

Continuous covariates correlations

Description

Plots the selected continuous covariates correlations.

Usage

plot_covariates_correlations(
  run,
  covariates = NULL,
  baseline_only = TRUE,
  correlation_method = NULL,
  auto_order = TRUE,
  smoothing_method = NULL,
  smoothing_se = TRUE,
  type = "heatmap",
  fixed_ratio = TRUE,
  auto_legend = TRUE
)

Arguments

run	pmxploit NONMEM run object.
covariates	character vector of continous covariates names. Default is NULL, returning all continuous covariates.
baseline_only	logical. Consider only the baseline (= first) values of the subjects. Default is TRUE.
correlation_method	a character string indicating which correlation coefficient (or covariance) is to be computed. One of "pearson" (default), "kendall", or "spearman": can be abbreviated. If type = "scatterplot", "pearson" method will be used.
auto_order	logical. If type = "heatmap", auto-orders the matrix with respect to the distances between values. Default is TRUE.
smoothing_method	character. If type = "scatterplot", corresponds to a ggplot2 smoothing method.
smoothing_se	logical. Display confidence interval around smooth?
type	character. Type of plot. One of heatmap or scatterplot.
fixed_ratio	logical. If type = "heatmap", plot scaled to a 1:1 ratio. Default is TRUE.
auto_legend	logical. When TRUE (default), default pmxploit plotting options are applied (title, labels, axis...).
split_by	character. If type = "scatterplot", categorical covariate name to colour observations by group.

Value

A a ggplot2 object.

Examples

cov <- c("AGE", "WT", "BSLDLC", "FBSPCSK", "TBSPCSK", "CLCR")

EXAMPLERUN %>%
  plot_covariates_correlations(covariates = cov, type = "heatmap")+
  ggplot2::theme(axis.text.x = ggplot2::element_text(angle = 45, hjust = 1),
  legend.position = "bottom")

EXAMPLERUN %>% plot_covariates_correlations(covariates = cov, type = "heatmap", auto_order = FALSE)+
  ggplot2::theme(axis.text.x = ggplot2::element_text(angle = 45, hjust = 1),
  legend.position = "bottom")

EXAMPLERUN %>%
  plot_covariates_correlations(covariates = c("AGE", "CLCR"), type = "scatterplot", smoothing_method = "lm")

EXAMPLERUN %>% plot_covariates_correlations(covariates = cov, type = "scatterplot")
EXAMPLERUN %>% plot_covariates_correlations(covariates = cov, type = "scatterplot", smoothing_method = "lm")
EXAMPLERUN %>% plot_covariates_correlations(covariates = cov, type = "scatterplot", smoothing_method = "loess")
EXAMPLERUN %>% group_by(STUD) %>% plot_covariates_correlations(covariates = cov, type = "scatterplot")

pnolain/pmxploit documentation built on Jan. 31, 2024, 1:16 p.m.