[R] KM estimation for interval censoring?

[Martin Maechler]

>>>>> "RobG" == Robert Gentleman <rgentlem at fhcrc.org>
>>>>>     on Mon, 28 Jan 2008 08:18:06 -0800 writes:

    RobG> The Icens package implements a number of different estimation paradigms. 
    RobG> Briefly, for interval censored data, the KM does not apply, but 
    RobG> Turnbull's method does. Relevant citations for Icens are in it.

    RobG> For a Cox model approach, there was at one time a package, not at CRAN, 
    RobG> by Commenges (and a Biometrics paper, I believe), Google suggests that 
    RobG> Dr. Commenges is pretty active in this area.

Further, Marloes Maathuis is active in this field, too.
Her (CRAN) R package is  'MLEcens'
which computes the (nonparametric!) MLE for (bivariate or univariate)
interval censored data, which -- I think -- is what the
KM estimator is for the one-sided censoring.

Martin Maechler, ETH Zurich


    RobG> David Winsemius wrote:
    >> "gallon li" <gallon.li at gmail.com> wrote in
    >> news:54f7e7c30801272341v3082e988qa6363991df956488 at mail.gmail.com: 
    >> 
    >>> Does anybody know if there is such a function to estimate the
    >>> distribution for interval censored data?
    >>> 
    >>> survfit doesn't work for this type of data as I tried various
    >>> references. 
    >> 
    >> My reading of R-help posts by Therneau and Lumley is that interval 
    >> censoring is only available for parametric estimates in the survival 
    >> package.
    >> 
    >> It's not KM, but perhaps this will be of interest:
    >> 
    >> "Turnbull's Nonparametric Estimator for Interval-Censored Data"
    >> Suely Ruiz Giolo
    >> 
    >> <http://www.est.ufpr.br/rt/suely04a.pdf>
    >> 
    >> Giolo cites KLEIN, J. P, MOESCHBERGER, M. Survival Analysis. New York: 
    >> Springer Verlag, 1997, for the algorithm.
    >> 
    >> This MIT-CSAIL report says they have an available R package that handles 
    >> interval censoring and time-dependent covariates:
    >> 
    >> http://dspace.mit.edu/bitstream/1721.1/33957/1/MIT-CSAIL-TR-2006-055.pdf
    >> 

    RobG> -- 
    RobG> Robert Gentleman, PhD
    RobG> Program in Computational Biology
    RobG> Division of Public Health Sciences
    RobG> Fred Hutchinson Cancer Research Center
    RobG> 1100 Fairview Ave. N, M2-B876
    RobG> PO Box 19024
    RobG> Seattle, Washington 98109-1024
    RobG> 206-667-7700
    RobG> rgentlem at fhcrc.org

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