TPmsm-package: Estimation of Transition Probabilities in Multistate Models

In TPmsm: Estimation of Transition Probabilities in Multistate Models

Estimation of Transition Probabilities in Multistate Models

Description

The TPmsm software contains functions that compute estimates for the transition probabilities in the illness-death model and or the three-state progressive model. This package implements seven different estimators. Being five of them non-parametric and two of them semi-parametric (PAJ and KMPW). The implemented estimators are the Aalen-Johansen estimator (AJ), Presmoothed Aalen-Johansen estimator (PAJ), Kaplan-Meier Weighted estimator (KMW), Presmoothed Kalpan-Meier Weighted estimator (KMPW), Inverse Probability Censoring estimator (IPCW), Lin estimator (LIN) and Location-Scale estimator (LS). The Inverse Probability Censoring (IPCW) and Lin (LIN) estimators also permit to compute transition probabilities conditioned on a single covariate. Bootstrap confidence bands can be computed for each of the mentioned estimators. Several graphical plots of the transition probabilities with or without confidence bands can be drawn. To aid in the study of the statistical properties of the implemented estimators, functions to generate pseudo-random data for some well-known multivariate distributions were implemented.

Details

Package:	TPmsm
Type:	Package
Version:	1.2.12
Date:	2023-12-07
License:	GPL-3
LazyLoad:	yes
LazyData:	yes

Author(s)

Artur Araújo, Javier Roca-Pardiñas [e-mail]
and Luís Meira-Machado [e-mail]
Maintainer: Artur Araújo [e-mail]

References

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Allignol A., Schumacher M., Beyersmann J. (2011). Empirical Transition Matrix of Multi-State Models: The etm Package. Journal of Statistical Software, 38(4), 1-15. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.18637/jss.v038.i04")}

Amorim A. P., de Uña-Álvarez J., Meira Machado L. F. (2011). Presmoothing the transition probabilities in the illness-death model. Statistics and Probability Letters, 81(7), 797-806. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1016/j.spl.2011.02.017")}

Araújo A, Meira-Machado L, Roca-Pardiñas J (2014). TPmsm: Estimation of the Transition Probabilities in 3-State Models. Journal of Statistical Software, 62(4), 1-29. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.18637/jss.v062.i04")}

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Lin D. Y. (1994). Cox regression analysis of multivariate failure time data: the marginal approach. Statistics in Medicine, 13(21), 2233-2247. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1002/sim.4780132105")}

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Meira Machado L. F., de Uña-Álvarez J., Cadarso-Suárez C. (2006). Nonparametric estimation of transition probabilities in a non-Markov illness-death model. Lifetime Data Anal, 12(3), 325-344. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1007/s10985-006-9009-x")}

Meira-Machado L., de Uña-Álvarez J., Datta S. (2011). Conditional Transition Probabilities in a non-Markov Illness-death Model. Discussion Papers in Statistics and Operations Research n 11/03. Department of Statistics and Operations Research, University of Vigo (ISSN: 1888-5756, Deposito Legal VG 1402-2007). https://depc05.webs.uvigo.es/reports/12_05.pdf

Meira-Machado L., Faria S. (2014). A simulation study comparing modeling approaches in an illness-death multi-state model. Communications in Statistics - Simulation and Computation, 43(5), 929-946. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1080/03610918.2012.718841")}

Meira-Machado L., Roca-Pardiñas J. (2011). p3state.msm: Analyzing Survival Data from an Illness-Death Model. Journal of Statistical Software, 38(3), 1-18. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.18637/jss.v038.i03")}

Meira-Machado L., Roca-Pardiñas J., Van Keilegom I., Cadarso-Suárez C. (2013). Bandwidth Selection for the Estimation of Transition Probabilities in the Location-Scale Progressive Three-State Model. Computational Statistics, 28(5), 2185-2210. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1007/s00180-013-0402-0")}

Meira-Machado L., Roca-Pardiñas J., Van Keilegom I. Cadarso-Suárez C. (2010). Estimation of transition probabilities in a non-Markov model with successive survival times. https://sites.uclouvain.be/IAP-Stat-Phase-V-VI/ISBApub/dp2010/DP1053.pdf

Meira-Machado, L., Sestelo M. (2019). Estimation in the progressive illness-death model: a nonexhaustive review. Biometrical Journal, 61(2), 245–263. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1002/bimj.201700200")}

Moertel C. G., Fleming T. R., MacDonald J. S., Haller D. G., Laurie J. A., Goodman P.J., Ungerleider J.S., Emerson W.A., Tormey D.C., Glick J.H., Veeder M.H., Maillard J.A. (1990). Levamisole and fluorouracil for adjuvant therapy of resected colon carcinoma. New England Journal of Medicine, 322(6), 352-358. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1056/NEJM199002083220602")}

Moertel C. G., Fleming T. R., MacDonald J. S., Haller D. G., Laurie J. A., Tangen C. M., Ungerleider J. S., Emerson W. A., Tormey D. C., Glick J. H., Veeder M. H., Maillard J. A. (1995). Fluorouracil plus Levamisole as an effective adjuvant therapy after resection of stage II colon carcinoma: a final report. Annals of Internal Medicine, 122(5), 321-326. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.7326/0003-4819-122-5-199503010-00001")}

Moreira A., de Uña-Álvarez J., Meira-Machado L. (2011). Presmoothing the Aalen-Johansen estimator of transition probabilities. Discussion Papers in Statistics and Operation Research n 11/03. Department of Statistics and Operations Research, University of Vigo (ISSN: 1888-5756, Deposito Legal VG 1402-2007). https://depc05.webs.uvigo.es/reports/11_03.pdf

Van Keilegom I., de Uña-Álvarez J., Meira-Machado L. (2011). Nonparametric location-scale models for successive survival times under dependent censoring. Journal of Statistical Planning and Inference, 141(3), 1118-1131. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1016/j.jspi.2010.09.010")}

Wei L. J., Lin D. Y., Weissfeld L. (1989). Regression analysis of multivariate incomplete failure time data by modeling marginal distributions. Journal of the American Statistical Association, 84(408), 1065-1073. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.2307/2290084")}

TPmsm documentation built on May 29, 2024, 10:43 a.m.