Description Usage Arguments See Also Examples
This plot summarises the proportion of patients having an adverse event in each time period as defined by periodDividerCols in the robustToxicitiesClass
.
1 2 | ToxPlot_byCycle(rt, gradeRequired = 1, col = c("blue", "red"),
tableSpace = 0.1, las = 1, legendPosition = "right", add = FALSE)
|
rt |
An object of class robustToxicities |
gradeRequired |
Only include adverse events with at least this grade |
col |
A vector of colours to plot each arm with |
tableSpace |
A parameter to assist in vertical row spacing the table appropriately |
las |
numeric in 0,1,2,3; the style of axis labels. 0: always parallel to the axis, 1: always horizontal [default], 2: always perpendicular to the axis, 3: always vertical |
legendPosition |
The location to place the legend see |
add |
TRUE/FALSE whether to add to an existing plot or start a new one |
ToxPlot_byPatient
, ToxPlot_byToxicity
, ToxPlot_byTime
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 | # Patient Level Data
data("rt_patientData")
# Toxicity Level Data
data("rt_toxicityData")
# Run the setup command passing in all the column names.
rt = SetupRobustToxicities(
toxData = rt_toxicityData,
patientData = rt_patientData,
patidCol = "patientNo", treatmentCol = "Treatment",
toxCategoryCol = "category", toxNameCol = "toxicity",
toxGradeCol = "grade", dateOfStartOfToxWindow = "Registration_date",
dateOfStartTox = "ae_onset_date", dateOfEndTox = "ae_resolve_date",
dateOfEndOfToxWindow = "end_of_assessment_date",
periodDividerCols = c("Registration_date", "Cycle_1_date","Cycle_2_date",
"Cycle_3_date", "Cycle_4_date", "Cycle_5_date", "Cycle_6_date"),
periodDividerLabels = c("Pre treatment", "Cycle 1","Cycle 2",
"Cycle 3","Cycle 4","Cycle 5", "Cycle 6"),
treatmentCodes = NULL, treatmentLabels = NULL, options = NULL)
# Look for queries. Note: must be called before running any
# of the functions on this class.
rt = QueryRobustToxicities(rt)
##########################################################
par(mar = c(4,6,3,2))
ToxPlot_byCycle(rt)
##########################################################
# subset to a specific set of adverse events
rt@toxData$ass_TRUE = rt@toxData$toxicity == "Sore Throat"
par(mar = c(4,6,3,2))
ToxPlot_byCycle(rt)
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