hit_grid: Plots multiple platemaps with and identifies hits

In platetools: Tools and Plots for Multi-Well Plates

Description

Converts numerical values and well labels into 'hits' in the form of multiple plate maps. Hits are calculated as wells above or below a specified number of standard deviations from the overall average

Usage

hit_grid(
  data,
  well,
  plate_id,
  threshold = 2,
  ncols = 2,
  plate = 96,
  each = FALSE,
  scale_each = FALSE,
  palette = "Spectral",
  ...
)

Arguments

data	Numerical values to be scaled and plotted
well	Vector of well identifiers. e.g "A01"
plate_id	Vector of plate identifiers e.g "Plate_1"
threshold	Numerical value of standard deviations from the mean for a well to be classified as a 'hit'. Default it +/- 2 SD
ncols	Number of columns in the grid of plates
plate	Number of wells in the complete plates (96, 384 or 1536)
each	boolean, allowed for backwards compatibility, scale_each is now the preferred argument name
scale_each	boolean, if true scales each plate individually, if false will scale the pooled values of data
palette	RColorBrewer palette
...	additional arguments for plot wrappers

Value

ggplot plot

Examples

df01 <- data.frame(well = num_to_well(1:96),
  vals = rnorm(96),
  plate = 1)

df02 <- data.frame(well = num_to_well(1:96),
  vals = rnorm(96),
  plate = 2)

df <- rbind(df01, df02)

hit_grid(data = df$vals,
    well = df$well,
    plate_id = df$plate,
    plate = 96,
    each = FALSE)

Example output

Warning message:
In hit_grid(data = df$vals, well = df$well, plate_id = df$plate,  :
  argument 'each' has been deprecated, you should use 'scale_each' in the future

platetools documentation built on June 3, 2021, 5:06 p.m.