From d932d9c2c92c53762ec23bd943bda91b4b2ab0fc Mon Sep 17 00:00:00 2001 From: jaredhuling Date: Thu, 27 May 2021 10:41:40 -0500 Subject: [PATCH] updates for cran --- DESCRIPTION | 2 +- R/fit_subgroup.R | 5 ++--- README.Rmd | 8 ++++---- README.md | 8 ++++---- man/fit.subgroup.Rd | 5 ++--- 5 files changed, 13 insertions(+), 15 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index 89d5855..68a1ae9 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -16,7 +16,7 @@ Description: Provides functions for fitting and validation of models for subgrou This package is intended for use for both randomized controlled trials and observational studies and is described in detail in Huling and Yu (2021) . -URL: https://jaredhuling.github.io/personalized/, +URL: https://jaredhuling.org/personalized/, https://arxiv.org/abs/1809.07905 BugReports: https://github.com/jaredhuling/personalized/issues License: GPL-2 diff --git a/R/fit_subgroup.R b/R/fit_subgroup.R index b8e96bd..62b07f5 100644 --- a/R/fit_subgroup.R +++ b/R/fit_subgroup.R @@ -236,16 +236,15 @@ #' Journal of Statistical Software 98(5), 1-60. doi:10.18637/jss.v098.i05 #' #' Chen, S., Tian, L., Cai, T. and Yu, M. (2017), A general statistical framework for subgroup identification -#' and comparative treatment scoring. Biometrics. doi:10.1111/biom.12676 \url{http://onlinelibrary.wiley.com/doi/10.1111/biom.12676/abstract} +#' and comparative treatment scoring. Biometrics. doi:10.1111/biom.12676 \url{https://onlinelibrary.wiley.com/doi/10.1111/biom.12676/abstract} #' #' Xu, Y., Yu, M., Zhao, Y. Q., Li, Q., Wang, S., & Shao, J. (2015), #' Regularized outcome weighted subgroup identification for differential treatment effects. Biometrics, 71(3), 645-653. -#' doi: 10.1111/biom.12322 \url{http://onlinelibrary.wiley.com/doi/10.1111/biom.12322/full} +#' doi: 10.1111/biom.12322 \url{https://onlinelibrary.wiley.com/doi/full/10.1111/biom.12322} #' #' Zhao, Y., Zeng, D., Rush, A. J., & Kosorok, M. R. (2012), #' Estimating individualized treatment rules using outcome weighted learning. #' Journal of the American Statistical Association, 107(499), 1106-1118. doi: 10.1080/01621459.2012.695674 -#' \url{http://dx.doi.org/10.1080/01621459.2012.695674} #' @return An object of class \code{"subgroup_fitted"}. #' \item{predict}{A function that returns predictions of the covariate-conditional treatment effects } #' \item{model}{An object returned by the underlying fitting function used. For example, if the lasso use used to fit diff --git a/README.Rmd b/README.Rmd index 6d4c458..445e47d 100644 --- a/README.Rmd +++ b/README.Rmd @@ -37,7 +37,7 @@ sticker(expression({plot.new(); text(0.5, 0.5, "p", font=2, cex = 10, col = scal The 'personalized' package is designed for the analysis of data where the effect of a treatment or intervention may vary for different patients. It can be used for either data from randomized controlled trials or observational studies and is not limited specifically to the analysis of medical data. -The personalized package provides estimation methods for subgroup identification under the framework of [Chen et al (2017)](http://onlinelibrary.wiley.com/doi/10.1111/biom.12676/abstract). It also provides routines for valid estimation of the subgroup-specific treatment effects. +The personalized package provides estimation methods for subgroup identification under the framework of [Chen et al (2017)](https://onlinelibrary.wiley.com/doi/abs/10.1111/biom.12676). It also provides routines for valid estimation of the subgroup-specific treatment effects. @@ -115,11 +115,11 @@ textrect(elpos[6,], lab = "validate.subgroup(model)", ## Documentation -[Documentation](http://jaredhuling.org/personalized/) +[Documentation](https://jaredhuling.org/personalized/) -- [Tutorial / Vignette](http://jaredhuling.org/personalized/articles/usage_of_the_personalized_package.html) - tutorial of statistical methodology and usage of the package +- [Tutorial / Vignette](https://jaredhuling.org/personalized/articles/usage_of_the_personalized_package.html) - tutorial of statistical methodology and usage of the package -- [Function help files](http://jaredhuling.org/personalized/reference/index.html) +- [Function help files](https://jaredhuling.org/personalized/reference/index.html) # Installing the 'personalized' package diff --git a/README.md b/README.md index 1480606..ce224b6 100644 --- a/README.md +++ b/README.md @@ -19,7 +19,7 @@ analysis of medical data. The personalized package provides estimation methods for subgroup identification under the framework of [Chen et al -(2017)](http://onlinelibrary.wiley.com/doi/10.1111/biom.12676/abstract). +(2017)](https://onlinelibrary.wiley.com/doi/abs/10.1111/biom.12676). It also provides routines for valid estimation of the subgroup-specific treatment effects. @@ -27,14 +27,14 @@ treatment effects. ## Documentation -[Documentation](http://jaredhuling.org/personalized/) +[Documentation](https://jaredhuling.org/personalized/) - [Tutorial / - Vignette](http://jaredhuling.org/personalized/articles/usage_of_the_personalized_package.html) + Vignette](https://jaredhuling.org/personalized/articles/usage_of_the_personalized_package.html) - tutorial of statistical methodology and usage of the package - [Function help - files](http://jaredhuling.org/personalized/reference/index.html) + files](https://jaredhuling.org/personalized/reference/index.html) # Installing the ‘personalized’ package diff --git a/man/fit.subgroup.Rd b/man/fit.subgroup.Rd index ac2c8a3..df21580 100644 --- a/man/fit.subgroup.Rd +++ b/man/fit.subgroup.Rd @@ -531,16 +531,15 @@ Huling. J.D. and Yu, M. (2021), Subgroup Identification Using the personalized P Journal of Statistical Software 98(5), 1-60. doi:10.18637/jss.v098.i05 Chen, S., Tian, L., Cai, T. and Yu, M. (2017), A general statistical framework for subgroup identification -and comparative treatment scoring. Biometrics. doi:10.1111/biom.12676 \url{http://onlinelibrary.wiley.com/doi/10.1111/biom.12676/abstract} +and comparative treatment scoring. Biometrics. doi:10.1111/biom.12676 \url{https://onlinelibrary.wiley.com/doi/10.1111/biom.12676/abstract} Xu, Y., Yu, M., Zhao, Y. Q., Li, Q., Wang, S., & Shao, J. (2015), Regularized outcome weighted subgroup identification for differential treatment effects. Biometrics, 71(3), 645-653. - doi: 10.1111/biom.12322 \url{http://onlinelibrary.wiley.com/doi/10.1111/biom.12322/full} + doi: 10.1111/biom.12322 \url{https://onlinelibrary.wiley.com/doi/full/10.1111/biom.12322} Zhao, Y., Zeng, D., Rush, A. J., & Kosorok, M. R. (2012), Estimating individualized treatment rules using outcome weighted learning. Journal of the American Statistical Association, 107(499), 1106-1118. doi: 10.1080/01621459.2012.695674 - \url{http://dx.doi.org/10.1080/01621459.2012.695674} } \seealso{ \code{\link[personalized]{validate.subgroup}} for function which creates validation results for subgroup