survival: Survival Analysis

In sbalci/jsurvival: Survival Module of ClinicoPath for jamovi

Survival Analysis

Description

Function for Generating Summaries for Survival Analysis.

Usage

survival(
  data,
  elapsedtime,
  tint = FALSE,
  dxdate,
  fudate,
  explanatory,
  outcome,
  outcomeLevel,
  dod,
  dooc,
  awd,
  awod,
  analysistype = "overall",
  cutp = "12, 36, 60",
  timetypedata = "ymd",
  timetypeoutput = "months",
  uselandmark = FALSE,
  landmark = 3,
  pw = FALSE,
  padjustmethod = "holm",
  ph_cox = FALSE,
  sc = FALSE,
  kmunicate = FALSE,
  ce = FALSE,
  ch = FALSE,
  endplot = 60,
  ybegin_plot = 0,
  yend_plot = 1,
  byplot = 12,
  multievent = FALSE,
  ci95 = FALSE,
  risktable = FALSE,
  censored = FALSE,
  pplot = TRUE,
  medianline = "none"
)

Arguments

data	The data as a data frame.
elapsedtime	The time elapsed from the start of the study to the event or censoring.
tint	If the time is in date format, select this option to calculate the survival time. The time will be calculated as the difference between the event date and the diagnosis date. If the follow-up date is available, the time will be calculated as the difference between the event date and the follow-up date.
dxdate	The date of diagnosis. If the time is in date format, the time will be calculated as the difference between the event date and the diagnosis date.
fudate	The date of follow-up. If the time is in date format, the time will be calculated as the difference between the event date and the follow-up date.
explanatory	The explanatory variable that will be used to compare the survival times of different groups.
outcome	The outcome variable that will be used to compare the survival times of different groups.
outcomeLevel	The level of the outcome variable that will be used as the event level.
dod	.
dooc	.
awd	.
awod	.
analysistype	.
cutp	.
timetypedata	select the time type in data
timetypeoutput	select the time type in output
uselandmark	.
landmark	.
pw	.
padjustmethod	.
ph_cox	.
sc	.
kmunicate	.
ce	.
ch	.
endplot	.
ybegin_plot	.
yend_plot	.
byplot	.
multievent	.
ci95	.
risktable	.
censored	.
pplot	.
medianline	If true, displays a line indicating the median survival time on the survival plot.

Value

A results object containing:

results$subtitle					a preformatted
results$todo					a html
results$medianSummary					a preformatted
results$medianTable					a table
results$coxSummary					a preformatted
results$coxTable					a table
results$tCoxtext2					a html
results$cox_ph					a preformatted
results$plot8					an image
results$survTableSummary					a preformatted
results$survTable					a table
results$pairwiseSummary					a preformatted
results$pairwiseTable					a table
results$plot					an image
results$plot2					an image
results$plot3					an image
results$plot6					an image
results$calculatedtime					an output
results$outcomeredefined					an output

Tables can be converted to data frames with asDF or as.data.frame. For example:

results$medianTable$asDF

as.data.frame(results$medianTable)

Examples

# example will be added

sbalci/jsurvival documentation built on Feb. 26, 2025, 1:20 a.m.