cci.nostrat | R Documentation |
This is an internal function and is not usually called by user.
This function estimates the unstratified current cumulative incidence (CCI), i.e. the probability that a patient is alive and in any disease remission after initiating his or her therapy. Optionally, this function estimates the unstratified common cumulative incidence (comCI) function.
cci.nostrat(data, maxx = NULL, com.est = TRUE, conf.int = FALSE, conf.int.level = NULL, no.iter = NULL, points = NULL, fig = TRUE)
data |
a matrix with ascending times from therapy initiation to occurrence of individual events (in days, i.e. positive integer values), total follow-up times from therapy initiation to data cut-off date (in days), and censoring indicators; the size of the data matrix is n times (2*r+2), where n is the number of patients and r is the maximum number of disease remissions achieved by patients; the data matrix consists of the following columns: |
maxx |
maximum follow-up time calculated from therapy initiation in days (defining time period for which the point estimates will be computed and curves will be plotted). Setting maxx smaller than the maximum follow-up time enables creating plots without fluctuating curve ends that may be caused by small number of patients. The default value is the maximum follow-up time (i.e. max(data[,2*r+1])). |
com.est |
a logical value indicating whether common cumulative incidence function should be estimated. The default value is TRUE. |
conf.int |
a logical value indicating whether confidence interval for the function(s) should be estimated. The default value is FALSE. |
conf.int.level |
two-sided confidence interval level (must be in range 0.9 and 0.99). The default value is 0.95. |
no.iter |
a number of bootstrap iterations for confidence interval computation (must be in range between 10 and 10,000). The default value is 100. |
points |
time points in which the point estimates will be computed (in months). The default values are 0, 12, 24, ..., floor(maxx/(365/12)). |
fig |
a logical value indicating whether a figure should be plotted. The default value is TRUE. |
a list containing the following elements:
no.risk |
numbers of patients at risk at the defined time points |
pest |
a matrix of point estimates (accompanied with confidence intervals) at the defined time points |
pest.day |
a matrix of point estimates (accompanied with confidence intervals) at each day of the follow-up time |
summary |
summary of input data |
Eva Janousova, Tomas Pavlik
Institute of Biostatistics and Analyses
Masaryk University, Brno, Czech Republic
janousova@iba.muni.cz
Pavlik T., Janousova E., Pospisil Z., et al. (2011). Estimation of current cumulative incidence of leukaemia-free patients and current leukaemia-free survival in chronic myeloid leukaemia in the era of modern pharmacotherapy. BMC Med Res Methodol 11:140.
cci
# This is an internal function and is not usually called by user.
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