Package comparec. R topics documented: February 19, Type Package
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1 Package comparec February 19, 2015 Type Package Title Compare Two Correlated C Indices with Right-censored Survival Outcome Version Date Author Le Kang, Weijie Chen Maintainer Le Kang <LKang@vcu.edu> Description Proposed by Harrell, the C index or concordance C, is considered an overall measure of discrimination in survival analysis between a survival outcome that is possibly right censored and a predictive-score variable, which can represent a measured biomarker or a compositescore output from an algorithm that combines multiple biomarkers. This package aims to statistically compare two C indices with right-censored survival outcome, which commonly arise from a paired design and thus resulting two correlated C indices. License GPL (>= 2.0) NeedsCompilation yes Repository CRAN Date/Publication :45:51 R topics documented: comparec estc vardiffc Index 6 1
2 2 comparec comparec Testing the difference between two correlated overall C indices Description This is a function used to test if the difference in two correlated overall C indices is statistically significant Usage comparec(timex, statusx, scorey, ) Arguments timex statusx scorey The vector of actual survival time X, one survival time for each observation The matching vector of event indicator for time X, 1 if occured and 0 otherwise The vector of the first measured biomarker or score Y, one for each of the same observations The vector of the second measured biomarker or score Z, one for each of the same observations Value est.c est.diff_c est.vardiff_c est.varcxy est.varcxz est.cov zscore pval The estimated two C indices The estimated difference of the two C indices, i.e.,c XY C XZ The estimated variance of the difference of two C indices The estimated variance of the C index for scorey The estimated variance of the C index for The estimated covariance between the two C indices for scorey and that for Z score (test statistic) for hypothesis testing P value for the comparison of two C indices Note Under non-random censoring, the returned p-value is statistically invalid as the assumption of random censoring is violated. Author(s) Le Kang, Weijie Chen
3 estc 3 References Harrell FE, Califf RM, Pryor DB, Lee KL, and Rosati RA. (1982) Evaluating the yield of medical tests. The Journal of the American Medical Association, 247(18), Pencina MJ and D Agostino RB. (2004) Overall C as a measure of discrimination in survival analysis: model specific population value and confidence interval estimation. Statistics in Medicine, 23(13), Kang L, Chen W, Petrick NA, and Gallas BD. (2014) Comparing two correlated C indices with right-censored survival outcome: a one-shot nonparametric approach. Statistics in Medicine, 34(4), , doi: /sim.6370 See Also estc,vardiffc Examples demo(testc) estc Estimation of a single overall C index Description This is a function used to estimate a single overall C index Usage estc(timex, statusx, scorey) Arguments timex statusx scorey The vector of actual survival time X, one survival time for each observation The matching vector of event indicator for time X, 1 if occured and 0 otherwise The vector of the measured biomarker Y, one for each of the same observations, based on which the C index is to be estimated Value The estimated C index Author(s) Le Kang, Weijie Chen
4 4 vardiffc References Harrell FE, Califf RM, Pryor DB, Lee KL, and Rosati RA. (1982) Evaluating the yield of medical tests. The Journal of the American Medical Association, 247(18), Pencina MJ and D Agostino RB. (2004) Overall C as a measure of discrimination in survival analysis: model specific population value and confidence interval estimation. Statistics in Medicine, 23(13), Kang L, Chen W, Petrick NA, and Gallas BD. (2014) Comparing two correlated C indices with right-censored survival outcome: a one-shot nonparametric approach. Statistics in Medicine, 34(4), , doi: /sim.6370 See Also vardiffc,comparec Examples demo(testc) vardiffc Variance estimation of the difference between two correlated overall C indices Description This is a function used to estimate the variance of the difference between two correlated overall C indices Usage vardiffc(timex, statusx, scorey, ) Arguments timex statusx scorey The vector of actual survival time X, one survival time for each observation The matching vector of event indicator for time X, 1 if occured and 0 otherwise The vector of the first measured biomarker Y, one for each of the same observations, based on which the variance of the difference in overall C indices is to be estimated The vector of the second measured biomarker Z, one for each of the same observations, based on which the variance of the difference in overall C indices is to be estimated
5 vardiffc 5 Value est.vardiff_c est.varcxy est.varcxz est.cov The estimated variance of the difference of two C indices The estimated variance of the C index for scorey The estimated variance of the C index for The estimated covariance between the two C indices for scorey and that for Author(s) Le Kang, Weijie Chen References Harrell FE, Califf RM, Pryor DB, Lee KL, and Rosati RA. (1982) Evaluating the yield of medical tests. The Journal of the American Medical Association, 247(18), Pencina MJ and D Agostino RB. (2004) Overall C as a measure of discrimination in survival analysis: model specific population value and confidence interval estimation. Statistics in Medicine, 23(13), Kang L, Chen W, Petrick NA, and Gallas BD. (2014) Comparing two correlated C indices with right-censored survival outcome: a one-shot nonparametric approach. Statistics in Medicine, 34(4), , doi: /sim.6370 See Also estc,comparec Examples demo(testc)
6 Index comparec, 2, 4, 5 estc, 3, 3, 5 vardiffc, 3, 4, 4 6
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