b_map: Plots a heatmap of b-score normalised values in a plate...

In Swarchal/platetools: Tools and Plots for Multi-Well Plates

Plots a heatmap of b-score normalised values in a plate layout

Description

Transforms numerical values using the b-score normalisation process to account for row and column effects. Uses well labels to plot the normalised values in the form of a microtitre plate. Works for 6, 12, 24, 48, 96, 384 or 1536 well plates

Usage

b_map(
  data,
  well,
  normalise = FALSE,
  plate = 96,
  eps = 0.01,
  maxiter = 10,
  trace.iter = FALSE,
  na.rm = TRUE,
  ...
)

Arguments

data	Numerical values in the form of a vector to be normalised
well	Vector of well identifiers, e.g "A01"
normalise	Boolean, if TRUE then the residual values will be divded by the plate median absolute deviation as per Malo et al.
plate	integer, 6, 12, 24, 48, 96, 384 or 1536
eps	real number greater than 0. A tolerance for divergence
maxiter	int, the maximum number of iterations
trace.iter	Boolean, should progress in convergence be reported?
na.rm	Boolean, should missing values be removed?
...	additional parameters to plot wrappers

Value

ggplot plot

Examples

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

b_map(data = df$vals,
     well = df$well,
     plate = 96)

df_384 <- data.frame(
         well = num_to_well(1:384, plate = 384),
         vals = rnorm(384))

b_map(data = df_384$vals,
     well = df_384$well,
     plate = 384)

Swarchal/platetools documentation built on March 7, 2024, 10 p.m.