heat.p: ggplot2 heatmap of p values
In nyiuab/NBZIMM: Negative Binomial and Zero-Inflated Mixed Models

heat.p

R Documentation

ggplot2 heatmap of p values

Description

Visualizing p values and positive coefficients for many responses and variables.

Usage

heat.p(df, p.breaks = c(0.001, 0.01, 0.05), 
      colors = c("darkblue", "blue", "lightblue", "grey"),
      title = NULL, subtitle = NULL,
      filter = c(FALSE, FALSE), x.size, y.size, symbol.size,
      zigzag = c(FALSE, FALSE), abbrv = c(FALSE, FALSE), 
      margin = c(1, 2), legend = TRUE)

Arguments

`df`	data frame, giving response names, variable names, coefficient estimates and p values for many responses and variables. The column names must include "responses", "variables", "Estimate" and "pvalue".
`p.breaks`	a vector (not including 0 and 1), partitioning p values into intervals.
`colors`	different colors for different p value intervals.
`title`	The text for title for the plot.
`subtitle`	The text for subtitle below the title.
`filter`	TRUE or FALSE. consist of two elements, the first is for responses (y-axis) and the second is for variables (x-axis). If `TRUE`, remove responses or variables with all p values larger than the maximun value of `p.breaks`.
`x.size`, `y.size`	size for names of x-axis or y-axis.
`symbol.size`	size for the symbol "+" for positive estimates (only those with p values smaller than the maximun value of `p.breaks`).
`zigzag`	TRUE or FALSE. consist of two elements, the first is for responses (y-axis) and the second is for variables (x-axis). If `TRUE`, re-arrange y-axis or x-axis labels in a zigzag shape.
`abbrv`	TRUE or FALSE. consist of two elements, the first is for responses (y-axis) and the second is for variables (x-axis). If `TRUE`, abbreviate y-axis or x-axis labels.
`marigin`	a numeric vector of two values for the margins in centimeter. the first is for the left and the second is for the bottom.
`legend`	TRUE or FALSE. show the legend for p values or not.