bhit_map: Platemap to identify 'hits' following a B-score normalisation

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

Platemap to identify 'hits' following a B-score normalisation

Description

Produces a platemap with colours indicating wells above or below selected threshold after normalising for systematic plate effects via B-score smooth. The threshold is definined calculated from a z-score, i.e plus or minus standard deviations from the plate mean.

Usage

bhit_map(
  data,
  well,
  plate = 96,
  threshold = 2,
  palette = "Spectral",
  eps = 0.01,
  maxiter = 10,
  trace.iter = FALSE,
  na.rm = TRUE,
  ...
)

Arguments

data	Vector of numerical values
well	Vector of well identifiers, e.g "A01"
plate	Number of wells in whole plate (96, 384 or 1536)
threshold	Standard deviations from the plate average to indicate a hit. default is set to +/- 2 SD.
palette	RColorBrewer palette
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(vals = rnorm(384),
   well = num_to_well(1:384, plate = 384))

bhit_map(data = df$vals,
   well = df$well,
   plate = 384,
   threshold = 3)

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