Heatmap by ggplot — ggheatmap • pcutils

Heatmap by ggplot

ggheatmap(
  otutab,
  pal = NULL,
  scale = "none",
  rowname = TRUE,
  colname = TRUE,
  tile_params = list(),
  row_cluster = FALSE,
  col_cluster = FALSE,
  row_annotation = NULL,
  col_annotation = NULL,
  annotation_pal = NULL
)

Arguments

otutab: otutab
pal: the main color pal, a vector of colors
scale: "none", "row", "column"
rowname: show row names?
colname: show column names?
tile_params: tile_params parsed to geom_tile
row_cluster: cluster the row?
col_cluster: cluster the column?
row_annotation: row annotation
col_annotation: column annotation
annotation_pal: the annotation color pal, a list. e.g. list(Group=c("red","blue"))

Value

a ggplot

Examples

if (interactive()) {
  data(otutab)
  ggheatmap(otutab[1:30, ],
    scale = "row", row_annotation = otutab[1:30, 1:2],
    col_annotation = metadata[, c(2, 4)]
  )
}