flowTime - Annotation and analysis of biological dynamical systems using
flow cytometry
This package facilitates analysis of both timecourse and
steady state flow cytometry experiments. This package was
originially developed for quantifying the function of gene
regulatory networks in yeast (strain W303) expressing
fluorescent reporter proteins using BD Accuri C6 and SORP
cytometers. However, the functions are for the most part
general and may be adapted for analysis of other organisms
using other flow cytometers. Functions in this package
facilitate the annotation of flow cytometry data with
experimental metadata, as often required for publication and
general ease-of-reuse. Functions for creating, saving and
loading gate sets are also included. In the past, we have
typically generated summary statistics for each flowset for
each timepoint and then annotated and analyzed these summary
statistics. This method loses a great deal of the power that
comes from the large amounts of individual cell data generated
in flow cytometry, by essentially collapsing this data into a
bulk measurement after subsetting. In addition to these summary
functions, this package also contains functions to facilitate
annotation and analysis of steady-state or time-lapse data
utilizing all of the data collected from the thousands of
individual cells in each sample.