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add_col_summary

Source: R/summary.R
add_col_summary.Rd

Adds a line plot summarizing the values across columns

Usage

# S4 method for Iheatmap
add_col_summary(
  p,
  groups = NULL,
  heatmap_name = NULL,
  colors = NULL,
  tracename = "Col Summary",
  showlegend = FALSE,
  side = c("top", "bottom"),
  layout = list(),
  size = 0.3,
  buffer = 0.02,
  xname = current_xaxis(p),
  yname = NULL,
  type = c("scatter", "bar"),
  summary_function = c("mean", "median", "sd", "var", "mad", "max", "min", "sum"),
  ...
)

Arguments

p

Iheatmap-class object

groups

vector of group labels, name of groups colorbar, or TRUE -- see Details

heatmap_name

name of a heatmap within the plot

colors

vector of colors or RColorBrewer palette name

tracename

name of trace

showlegend

show legend?

side

side of plot on which to add subplot

layout

xaxis layout list

size

relative size of subplot relative to main heatmap

buffer

amount of space to leave empty before this plot, relative to size of first heatmap

xname

internal name of xaxis

yname

internal name of yaxis

type

scatter or bar?

summary_function

summary function to use, default is mean, options are mean, median, sd, var, mad, max, min, and sum

...

additional arguments to add_col_plot or add_col_barplot

Value

Iheatmap-class object, which can be printed to generate an interactive graphic

Details

If adding the column summary to a vertically oriented heatmap, the summary will be based on the topmost heatmap if side is "top" and based on the bottom heatmap if side is "bottom" unless a "heatmap_name" is specified. The heatmap_name should match the "pname" argument given to a previously added heatmap.

The column summary is based on specific rows if a "groups" argument is given. The groups argument can either be a vector of group assignments for each row, the "pname" for an existing set of groups incorporated into the plot using add_row_groups, add_row_annotation, add_row_clusters, or add_row_clustering. If groups is set to TRUE, then the function will use an existing set of row groups added to the plot.

See also

add_row_summary, iheatmap, add_col_plot

Author

Alicia Schep

Examples


mat <- matrix(rnorm(20), ncol = 5, nrow = 4)  
hm1 <- iheatmap(mat) %>% add_col_summary()
hm2 <- iheatmap(mat) %>% add_col_summary(groups = c("A","A","B","B"))

# Print heatmap if interactive session 
if (interactive()) hm1
if (interactive()) hm2