plot_compareMeanOfEach_inPairs: To compare means in every plates

In Rundmus/BAf-R_package: Binder Array data hanlding package in facility

Description

plot to observe correlation between the estimates (e.g. mean) that represent intensities for each antibody in a single window coloring each assay separately.

Usage

plot_compareMeanOfEach_inPairs(X, ...)

## S4 method for signature 'matrix'
plot_compareMeanOfEach_inPairs(
  X,
  groupID,
  log = TRUE,
  MAplot = FALSE,
  main,
  legend_par = list(x = "bottomright"),
  ...
)

## S4 method for signature 'BAf'
plot_compareMeanOfEach_inPairs(
  X,
  geometric = FALSE,
  by = "plate",
  log = TRUE,
  MAplot = FALSE,
  main = paste0("Comparing", if (geometric) " geometric" else "", " means"),
  legend_par = list(x = "bottomright"),
  prefix_plate = by,
  ...
)

Arguments

X	a BAf object or a matrix in which each ROW represents each TARGET and each COLUMN indicates each COLLECTION of samples to be paired. The column name should indicate the name of the collections.
...	any arguments that pass to plot and points
groupID	a vector of the group ids. Each group will be plotted in different color. It should have same number of rows of X
log	logically indicates if the coordinates are in log scale
MAplot	whether an MA-plot is wanted
main	same as the ones for 'plot' generic function (refer par)
legend_par	a list of parameter to be used in adding a legend. If groupID is missing then no legend will be added.
geometric	if the geometric mean is computed instead of arithmetic one.
by	by which column the samples should be devided during calculation of the mean
prefix_plate	the prefix added to the plate ID shown in X- and Y-axes

Value

A plot is generated and a "list" of x- and y- coordinate limits is returned.

Author(s)

Mun-Gwan Hong <[e-mail]>

Examples

data(sba)
## Not run: plot_compareMeanOfEach_inPairs.BAf(sba)

Rundmus/BAf-R_package documentation built on May 18, 2020, 12:59 p.m.