plotTraj: Plot individual time series

In dmattek/tca-package: Time Course Analyzer

Description

Plot individual time series

Usage

plotTraj(dt.arg, x.arg, y.arg, group.arg, facet.arg = NULL,
  summary.arg = c("none", "mean", "meanCInorm", "meanCIboot"),
  facet.ncol.arg = 2, line.col.arg = NULL, xlab.arg = "Time",
  ylab.arg = "Fl. int.", plotlab.arg = "", dt.stim.arg = NULL,
  stim.x.arg, stim.y.arg, maxrt.arg = 60, xaxisbreaks.arg = 10,
  xlim.arg = NULL, ylim.arg = NULL)

Arguments

dt.arg	Data table in long format
x.arg	String with column name of x-axis data
y.arg	String with column name of y-axis data
group.arg	String with column name of the grouping variable for trajectories. This is usually a trackID.
facet.arg	String with oclumn name of the variable used for plot facets (optional)
summary.arg	Optional summary stats to plot on top of individual time series. Choose from c('none', 'mean', 'meanCInorm', 'meanCIboot'), to plot no extra stats, the mean, the mean with 95% CI calculated from the normal distribution approximation, the mean with 95% CI calculated via bootstrapping, respectively.
facet.ncol.arg	Number of facetting columns
line.col.arg	String with variable name to use for time series colouring (default NULL)
xlab.arg	String with x-axis label
ylab.arg	String with y-axis label
plotlab.arg	String with plot title
dt.stim.arg	Data table with stimulation curve
stim.x.arg	String with column name of x-axis stimulation data
stim.y.arg	String with column name of y-axis stimulation data
maxrt.arg	Max value of x-axis label
xaxisbreaks.arg	Value of x-axis interval
xlim.arg	Limit of x-axis
ylim.arg	Limit of y-axis

Value

ggplot2 plot object

Examples

require(tca)

# generate synthetic time series
dt = genTraj()

# plot each group in a separate facet; add population mean
plotTraj(dt.arg = dt, x.arg = 'Metadata_RealTime', y.arg = 'objNuc_Intensity_MeanIntensity_imErkCor', group.arg = 'TrackLabel', facet.arg = 'Metadata_Site', summary.arg = 'mean')

dmattek/tca-package documentation built on Dec. 10, 2019, 4:10 p.m.