tidyFlow: Generate a tidy dataset from time-course flow cytometry data

In wrightrc/flowTime: Annotation and analysis of biological dynamical systems using flow cytometry

Generate a tidy dataset from time-course flow cytometry data

Description

Generates a tibble containing all parameters and phenoData from a flowSet which can be used to visualize and analyze timecourse flow cytometry data.

Usage

tidyFlow(flowset, gated = TRUE, ploidy = NA, only = NA)

Arguments

flowset	your flowSet to be analyzed
gated	boolean is the data already gated?
ploidy	character gate to subset your flowset based on the ploidy of you strains
only	character which population of events to analyze, 'yeast', singlets', or 'doublets'?

Value

a data frame containing all of the selected subset of events from the original flowSet for all parameters including experiment time, etime, the time after the initial reading at which each event was collected.

Examples

plate1<-read.flowSet(path=system.file("extdata", "tc_example",
package = "flowTime"), alter.names = TRUE)
annotation <- read.csv(system.file("extdata", "tc_example.csv",
package = "flowTime"))
plate1 <- annotateFlowSet(plate1, annotation)
tidy_dat <- tidyFlow(plate1, gated = TRUE)
head(tidy_dat)

wrightrc/flowTime documentation built on Dec. 8, 2022, 9:50 p.m.