geom_stats: Add a popluation statistics layer to a ggcyto plot.

Description Usage Arguments Details Value Examples

View source: R/geom_stats.R

Description

This is a virtual layer and will be instanatiated as geom_label layer within ggycto.+ operator.

Usage

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geom_stats(gate = NULL, ..., value = NULL, type = "percent",
  negated = FALSE, adjust = 0.5, label.padding = unit(0.05, "lines"),
  label.size = 0, digits = 3)

Arguments

gate

a 'filterList' or character (represent as a population node in GatingSet) if not supplied, ggcyto then tries to parse the gate from the first geom_gate layer.

...

other arguments passed to geom_label layer

value

the pre-calculated stats value. when supplied, the stats computing is skipped.

type

a vector of strings to specify the stats types. can be any or multiple values of "percent", "count", "gate_name", or "MFI" (MFI is currently not supported yet).

negated

whether the gate needs to be negated

adjust

adjust the position of the centroid. from 0 to 1.

label.padding, label.size

arguments passed to geom_label layer

digits

control the stats format

Details

So it is dedicated for ggcyto context and thus cannot be added to ggplot object directly.

Value

a geom_popStats layer

Examples

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dataDir <- system.file("extdata",package="flowWorkspaceData")
gs <- load_gs(list.files(dataDir, pattern = "gs_manual",full = TRUE))
p <- ggcyto(gs, aes(x = CD4, y = CD8), subset = "CD3+") + geom_hex(bins = 64)
p
# add gate and stats layer
p + geom_gate("CD4") + geom_stats()

# display gate name
p + geom_gate(c("CD4", "CD8")) + geom_stats(type = "gate_name")
# display gate name and percent
p + geom_gate(c("CD4", "CD8")) + geom_stats(type = c("gate_name", "percent"))

ggcyto documentation built on Jan. 15, 2019, 6:01 p.m.