degPlotCluster {DEGreport} | R Documentation |
This function helps to format the cluster plots from degPatterns()
.
It allows to control the layers and it returns a ggplot object that
can accept more ggplot functions to allow customization.
degPlotCluster(table, time, color = NULL, points = TRUE, boxes = TRUE, smooth = TRUE, lines = TRUE, facet = TRUE)
table |
|
time |
column name to use in the x-axis. |
color |
column name to use to color and divide the samples. |
points |
Add points to the plot. |
boxes |
Add boxplot to the plot. |
smooth |
Add regression line to the plot. |
lines |
Add gene lines to the plot. |
facet |
Split figures based on cluster ID. |
ggplot2 object.
data(humanGender) library(SummarizedExperiment) library(ggplot2) ma <- assays(humanGender)[[1]][1:100,] des <- colData(humanGender) des[["other"]] <- sample(c("a", "b"), 85, replace = TRUE) res <- degPatterns(ma, des, time="group", col = "other", plot = FALSE) degPlotCluster(res$normalized, "group", "other") degPlotCluster(res$normalized, "group", "other", lines = FALSE)