tx_icicle: Generate an icicle plot for treatment data.

In johnwilsonICON/TxVis: Visualizations for treatment sequence data

Description

Using a txvis object, plot the sequencing of treatments using an icicle plot.

Usage

tx_icicle(txvis, nsequ = NULL, seq.v.dat = "seq", start = NULL,
  end = NULL, interval = "month", conflict = "majority",
  tx_color = NULL)

Arguments

txvis	An object of class txvis.
nsequ	The number of sequences to be shown (default is 4)
seq.v.dat	Should the data be plotted by sequence order or by date?
start	If supplied the data will be truncated to all sequences after a start date.
end	If supplied the data will be truncated to all sequences before the end date.
interval	Length of time for intervening intervals for data plotted by date.
conflict	If two treatments fall within the same date interval, which should be displayed?
tx_color	A colorRampPalette to color the sequnces. Note that the first element of the color vector always codes to "None".

Value

A ggplot2 object.

Examples

 hlth_data <- create_txvis(patient        = treat$pat_id, 
                           treatment      = treat$treatment,
                           start          = treat$start,
                           end            = treat$end,
                           date_format    = "%d%b%Y",
                           ev_patient     = events$pat_id,
                           events         = events$event,
                           event_date     = events$start,
                           event_end_date = events$end)
                           
 # Basic plotting:                          
 tx_icicle(hlth_data)
 
 #  Add additional ggplot2 styline:
 tx_indiv(hlth_data) + ggplot2::theme_bw()
 
 # Use a customized color palette:
 library(RColorBrewer)
 colors <- c("#FFFFFF", brewer.pal(length(levels(hlth_data[[1]]$tx)), 'Accent'))
 tx_icicle(hlth_data, tx_color = colors)

johnwilsonICON/TxVis documentation built on May 19, 2019, 5:18 p.m.