plot_timecourse_raw: Plot an time course of the raw intensities

In DavidQuigley/HTDoseResponseCurve: Dose Response Curve Evaluation from Incucyte and Other High-Throughput Platforms

Description

Plot an time course of the raw intensities

Usage

plot_timecourse_raw(D, sample_types, treatments, concentrations, ...,
  cex.yaxis = 2, axis.font = 2, summary_method = "mean")

Arguments

D	experiment dataset with columns matching the output of combine_data_and_maps
sample_types	which sample types to draw
treatments	which treatments to draw
concentrations	which concentrations to draw
...	standard parameters for plot function
cex.yaxis	size coefficient for Y axis, default 2
axis.font	font value for axis, default 2 (bold)
summary_method	summary method for points to plot in timecourse, one of (mean, median), defaults to mean

Value

data frame reporting points plotted, sample types, and concentrations

Examples

pkg = "HTDoseResponseCurve"
fn_map = system.file("extdata", "sample_data_384_platemap.txt",package=pkg)
fn_data = system.file("extdata", "sample_data_384.xlsx", package = pkg)
plate_map = read_platemap_from_Incucyte_XML( fn_map )
plate_data = read_plates_from_Incucyte_export( fn_data, "p1", 
                                               number_of_wells=384)
plate_data$hours = round(plate_data$hours)
ds = combine_data_and_map( plate_data, plate_map, negative_control = "DMSO" )
ds = ds[ds$treatment=="drug13" | ds$treatment=="DMSO",]
plot_timecourse_raw( ds, sample_types=c("line_1", "line_2"), 
                     treatments="DMSO", concentrations=0)

DavidQuigley/HTDoseResponseCurve documentation built on Jan. 23, 2021, 5:10 a.m.