plot_gs: Plot a GatingSet

In VoisinneG/flowR: R-shiny interface for the analysis of flow cytometry data

Description

Plot a GatingSet

Usage

plot_gs(
  gs,
  df = NULL,
  sample = NULL,
  subset = NULL,
  spill = NULL,
  metadata = NULL,
  gate_name = NULL,
  Ncells = NULL,
  plot_type = "hexagonal",
  plot_args = list(),
  options = list()
)

Arguments

gs	a GatingSet
df	a data.frame with plot data resulting from a call of get_plot_data. Supersedes parameters 'gs', 'sample', 'spill', 'metadata'
sample	Names of samples from the GatingSet (as returned by pData(gs)$name)
subset	Names of subsets from the GatingSet (as returned by gs_get_pop_paths(gs))
spill	spillover matrix. If NULL, uncompensated data is used for gating and plotting.
metadata	a data.frame containing metadata associated to samples. Must have a column name used for mapping.
gate_name	Names of the gates to add to the plot (if it is compatible with plot parameters). Ignored if NULL.
Ncells	Maximum number of cells per sample and subset. If NULL, all cells are used.
plot_type	name of the plot type
plot_args	list of plot parameters passed to the plot function. Plot parameters depend on the plot type selected.
options	list of plot format options passed to format_plot()

Value

a plot

VoisinneG/flowR documentation built on June 1, 2021, 6:42 p.m.