diff --git a/DESCRIPTION b/DESCRIPTION index a716fdb..c49532e 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -4,14 +4,11 @@ Description: Synthesizes information across collaborating research. Created specifically for Integrative Analysis of Longitudinal Studies of Aging (IALSA). Version: 0.1.8.9001 Date: 2018-08-23 -Authors@R: c(person("Will", "Beasley", email="wibeasley@hotmail.com", role=c("aut", "cre")), +Authors@R: c(person("Will", "Beasley", email="wibeasley@hotmail.com", role=c("aut", "cre"), + comment = c(ORCID = "0000-0002-5613-5006")), person("Andrey", "Koval", email="andkov@uvic.ca", role = c("aut")), person(given="Integrative Analysis of Longitudinal Studies of Aging (IALSA)", role = c("cph"))) -Author: Will Beasley [aut, cre], - Andrey Koval [aut], - Integrative Analysis of Longitudinal Studies of Aging (IALSA) [cph] -Maintainer: Will Beasley -URL: https://github.com/IALSA/IalsaSynthesis, http://www.ialsa.org/ +URL: https://github.com/IALSA/IalsaSynthesis, https://www.maelstrom-research.org/mica/network/ialsa#/ BugReports: https://github.com/IALSA/IalsaSynthesis/issues Depends: R(>= 3.0.0), diff --git a/R/IalsaSynthesis-package.r b/R/IalsaSynthesis-package.r index 9aae411..f58b38f 100644 --- a/R/IalsaSynthesis-package.r +++ b/R/IalsaSynthesis-package.r @@ -1,42 +1,42 @@ #' @name IalsaSynthesis-package #' @docType package -#' +#' #' @title Synthesizing Information Across Collaborating Research -#' -#' @description Synthesizing information across collaborating research. Created for \href{http://www.ialsa.org/}{Integrative Analysis of Longitudinal Studies of Aging} (IALSA). -#' +#' +#' @description Synthesizing information across collaborating research. Created for \href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Integrative Analysis of Longitudinal Studies of Aging} (IALSA). +#' #' @note The release version will be available through \href{https://cran.r-project.org/package=IalsaSynthesis}{CRAN}. #' The most recent development version is available through \href{https://github.com/IALSA/IalsaSynthesis}{GitHub}. #' Please see the installation examples below. -#' +#' #' If you're having trouble with the package, please install the development version. If this doesn't solve #' your problem, please create a \href{https://github.com/IALSA/IalsaSynthesis/issues}{new issue}, or email Will or Andrey. -#' -#' @references -#' +#' +#' @references +#' #' IALSA is funded through an NIH/NIA Program Project Grant ( -#' \href{http://projectreporter.nih.gov/project_info_description.cfm?aid=8414933&icde=18870651&ddparam=&ddvalue=&ddsub=&cr=3&csb=default&cs=ASC}{P01AG043362}); 2013-2018) to Oregon Health & Science University -#' (Program Directors: -#' \href{http://www.ialsa.org/users/hofer}{Scott Hofer}, -#' \href{http://www.ialsa.org/users/piccinin}{Andrea Piccinin}, -#' \href{http://www.ialsa.org/users/kaye}{Jeffrey Kaye}, and -#' \href{http://www.ialsa.org/users/kuh}{Diana Kuh}) -#' and previously funded by NIH/NIA (\href{http://projectreporter.nih.gov/project_info_description.cfm?aid=7210005&icde=19139556&ddparam=&ddvalue=&ddsub=&cr=5&csb=default&cs=ASC}{R01AG026453}; 2007-2013) and CIHR (103284; 2010-2013). -#' -#' @author -#' \href{http://scholar.google.com/citations?user=ffsJTC0AAAAJ}{William Howard Beasley} -#' --Assistant Professor of Research, \href{http://find.ouhsc.edu/Faculty.aspx?FacultyID=1064}{University of Oklahoma Health Sciences Center}, -#' \href{http://www.oumedicine.com/pediatrics}{Dept of Pediatrics}, Biomedical and Behavioral Methodology Core (\href{http://ouhsc.edu/bbmc/}{BBMC}) -#' -#' +#' \href{https://projectreporter.nih.gov/project_info_description.cfm?aid=8414933&icde=18870651&ddparam=&ddvalue=&ddsub=&cr=3&csb=default&cs=ASC}{P01AG043362}); 2013-2018) to Oregon Health & Science University +#' (Program Directors: +#' \href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Scott Hofer}, +#' \href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Andrea Piccinin}, +#' \href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Jeffrey Kaye}, and +#' \href{https://www.maelstrom-research.org/mica/individual-study/mrc-nshd#/}{Diana Kuh}) +#' and previously funded by NIH/NIA (\href{https://projectreporter.nih.gov/project_info_description.cfm?aid=7210005&icde=19139556&ddparam=&ddvalue=&ddsub=&cr=5&csb=default&cs=ASC}{R01AG026453}; 2007-2013) and CIHR (103284; 2010-2013). +#' +#' @author +#' \href{http://scholar.google.com/citations?user=ffsJTC0AAAAJ}{William Howard Beasley} +#' --Associate Professor of Research, \href{http://find.ouhsc.edu/Faculty.aspx?FacultyID=1064}{University of Oklahoma Health Sciences Center}, +#' \href{https://www.oumedicine.com/department-of-pediatrics}{Dept of Pediatrics}, Biomedical and Behavioral Methodology Core (\href{https://ouhsc.edu/bbmc/}{BBMC}) +#' +#' #' \href{https://www.researchgate.net/profile/Andrey_Koval}{Andrey Koval} #' --Post Doc, \href{http://www.uvic.ca/}{University of Victoria}, \href{http://www.uvic.ca/socialsciences/psychology/}{Department of Psychology} -#' +#' #' @examples #' \dontrun{ #' # Install/update IalsaSynthesis with the release version from CRAN. #' install.packages('IalsaSynthesis') -#' +#' #' # Install/update IalsaSynthesis with the development version from GitHub #' #install.packages('devtools') #Uncomment if `devtools` isn't installed already. #' devtools::install_github('IALSA/IalsaSynthesis') diff --git a/README.md b/README.md index d82f7e2..2a91fc0 100644 --- a/README.md +++ b/README.md @@ -12,13 +12,13 @@ IalsaSynthesis An [R](http://www.r-project.org/) package for synthesizing information across collaborating research. -[![logo](man/figures/ialsa-wide.png)](http://www.ialsa.org/) +[![logo](man/figures/ialsa-wide.png)](https://www.maelstrom-research.org/mica/network/ialsa#/) -[IALSA](http://www.ialsa.org/) (Integrative Analysis of Longitudinal Studies of Aging) research network unites approximately 100 longtidinal studies from all over the world. IALSA makes primary use of a [coordinated analysis approach](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2773828/) and various [harmonization methods](https://www.maelstrom-research.org/repository/methods_library). Our projects involve dealing with multiple longitudinal studies, each of which may count numerous statistical models, making the synthesis of results particularly arduous. The `IalsaSynthesis` package offers software tools for extracting, pooling, evaluating, and reporting the results of a large number of statistical models. See out [flagship project](https://github.com/IALSA/IALSA-2015-Portland), stemming from coordinated analysis workshop in Portland in February of 2015. +[IALSA](https://www.nia.nih.gov/research/resource/integrative-analysis-longitudinal-studies-aging-ialsa) (Integrative Analysis of Longitudinal Studies of Aging) research network unites approximately 100 longtidinal studies from all over the world. IALSA makes primary use of a [coordinated analysis approach](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2773828/) and various [harmonization methods](https://www.maelstrom-research.org/repository/methods_library). Our projects involve dealing with multiple longitudinal studies, each of which may count numerous statistical models, making the synthesis of results particularly arduous. The `IalsaSynthesis` package offers software tools for extracting, pooling, evaluating, and reporting the results of a large number of statistical models. See out [flagship project](https://github.com/IALSA/IALSA-2015-Portland), stemming from coordinated analysis workshop in Portland in February of 2015. ### Package Crew -[Will Beasley](https://www.researchgate.net/profile/William_Beasley2) (*[University of Oklahoma Health Sciences Center](http://ouhsc.edu/), [Department of Pediatrics](http://www.oumedicine.com/pediatrics), [Biomedical & Behavioral Research Core](http://ouhsc.edu/BBMC/)*) +[Will Beasley](https://www.researchgate.net/profile/William_Beasley2) (*[University of Oklahoma Health Sciences Center](https://ouhsc.edu/), [Department of Pediatrics](https://www.oumedicine.com/department-of-pediatrics), [Biomedical & Behavioral Research Core](http://ouhsc.edu/BBMC/)*) [Andrey Koval](https://www.researchgate.net/profile/Andrey_Koval) ([University of Victoria](http://www.uvic.ca/), [Institute on Aging and Lifelong Health](http://www.uvic.ca/aging/)*). @@ -30,7 +30,7 @@ An [R](http://www.r-project.org/) package for synthesizing information across co | [Latest](https://cran.r-project.org/package=IalsaSynthesis) | [![CRAN_Status_Badge](http://www.r-pkg.org/badges/version/IalsaSynthesis)](https://cran.r-project.org/package=IalsaSynthesis) | ![CRANPace](http://cranlogs.r-pkg.org/badges/IalsaSynthesis) | [![DOI](https://zenodo.org/badge/34798650.svg)](https://zenodo.org/badge/latestdoi/34798650) | | | *Latest CRAN version* | *CRAN Downloads* | *Independently-hosted Archive* | -The released CRAN version of IalsaSynthesis can be installed through R. (The *release* version will be available on [CRAN](http://cran.rstudio.com/) closer to the Gothenburg conference.) +The released CRAN version of IalsaSynthesis can be installed through R. (The *release* version will be available on [CRAN](https://cran.rstudio.com/) closer to the Gothenburg conference.) ```R install.packages("IalsaSynthesis") @@ -49,7 +49,7 @@ The package documentation for the [development version](documentation-peek.pdf) Consistent with IALSA goals, we encourage input and collaboration from the overall community. If you're familar with GitHub and R packages, feel free to submit a [pull request](https://github.com/IALSA/IalsaSynthesis/pulls). If you'd like to report a bug or make a suggestion, please create a GitHub [issue](https://github.com/IALSA/IalsaSynthesis/issues); issues are a usually a good place to ask public questions too. However, feel free to email Andrey or Will privately ( or ). ### Thanks to Funders -IALSA is funded through an NIH/NIA Program Project Grant ([P01AG043362](http://projectreporter.nih.gov/project_info_description.cfm?aid=8414933&icde=18870651&ddparam=&ddvalue=&ddsub=&cr=3&csb=default&cs=ASC); 2013-2018) to Oregon Health & Science University (Program Directors: [Scott Hofer](http://www.ialsa.org/users/hofer), [Andrea Piccinin](http://www.ialsa.org/users/piccinin), [Jeffrey Kaye](http://www.ialsa.org/users/kaye), and [Diana Kuh](http://www.ialsa.org/users/kuh)) and previously funded by NIH/NIA ([R01AG026453](http://projectreporter.nih.gov/project_info_description.cfm?aid=7210005&icde=19139556&ddparam=&ddvalue=&ddsub=&cr=5&csb=default&cs=ASC); 2007-2013) and CIHR (103284; 2010-2013). +IALSA is funded through an NIH/NIA Program Project Grant ([P01AG043362](https://projectreporter.nih.gov/project_info_description.cfm?aid=8414933&icde=18870651&ddparam=&ddvalue=&ddsub=&cr=3&csb=default&cs=ASC); 2013-2018) to Oregon Health & Science University (Program Directors: [Scott Hofer](https://www.maelstrom-research.org/mica/network/ialsa#/users/hofer), [Andrea Piccinin](https://www.maelstrom-research.org/mica/network/ialsa#/users/piccinin), [Jeffrey Kaye](https://www.maelstrom-research.org/mica/network/ialsa#/users/kaye), and [Diana Kuh](https://www.maelstrom-research.org/mica/network/ialsa#/users/kuh)) and previously funded by NIH/NIA ([R01AG026453](https://projectreporter.nih.gov/project_info_description.cfm?aid=7210005&icde=19139556&ddparam=&ddvalue=&ddsub=&cr=5&csb=default&cs=ASC); 2007-2013) and CIHR (103284; 2010-2013). ### Code Coverage Over Time diff --git a/libs/documents/architecture.html b/libs/documents/architecture.html index b124569..39fc914 100644 --- a/libs/documents/architecture.html +++ b/libs/documents/architecture.html @@ -61,7 +61,7 @@ diff --git a/libs/documents/architecture.md b/libs/documents/architecture.md index ec620f8..775dba3 100644 --- a/libs/documents/architecture.md +++ b/libs/documents/architecture.md @@ -1,5 +1,5 @@ --- -title: Proposed Architecture of Synthesis Ecosystem for [IALSA](http://www.ialsa.org/) +title: Proposed Architecture of Synthesis Ecosystem for [IALSA](https://www.maelstrom-research.org/mica/network/ialsa#/) date: 2015-05-21 output: html_document: diff --git a/man/IalsaSynthesis-package.Rd b/man/IalsaSynthesis-package.Rd index 9e22da5..593956f 100644 --- a/man/IalsaSynthesis-package.Rd +++ b/man/IalsaSynthesis-package.Rd @@ -5,7 +5,7 @@ \alias{IalsaSynthesis-package} \title{Synthesizing Information Across Collaborating Research} \description{ -Synthesizing information across collaborating research. Created for \href{http://www.ialsa.org/}{Integrative Analysis of Longitudinal Studies of Aging} (IALSA). +Synthesizing information across collaborating research. Created for \href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Integrative Analysis of Longitudinal Studies of Aging} (IALSA). } \note{ The release version will be available through \href{https://cran.r-project.org/package=IalsaSynthesis}{CRAN}. @@ -27,20 +27,20 @@ devtools::install_github('IALSA/IalsaSynthesis') } \references{ IALSA is funded through an NIH/NIA Program Project Grant ( -\href{http://projectreporter.nih.gov/project_info_description.cfm?aid=8414933&icde=18870651&ddparam=&ddvalue=&ddsub=&cr=3&csb=default&cs=ASC}{P01AG043362}); 2013-2018) to Oregon Health & Science University -(Program Directors: -\href{http://www.ialsa.org/users/hofer}{Scott Hofer}, -\href{http://www.ialsa.org/users/piccinin}{Andrea Piccinin}, -\href{http://www.ialsa.org/users/kaye}{Jeffrey Kaye}, and -\href{http://www.ialsa.org/users/kuh}{Diana Kuh}) -and previously funded by NIH/NIA (\href{http://projectreporter.nih.gov/project_info_description.cfm?aid=7210005&icde=19139556&ddparam=&ddvalue=&ddsub=&cr=5&csb=default&cs=ASC}{R01AG026453}; 2007-2013) and CIHR (103284; 2010-2013). +\href{https://projectreporter.nih.gov/project_info_description.cfm?aid=8414933&icde=18870651&ddparam=&ddvalue=&ddsub=&cr=3&csb=default&cs=ASC}{P01AG043362}); 2013-2018) to Oregon Health & Science University +(Program Directors: +\href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Scott Hofer}, +\href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Andrea Piccinin}, +\href{https://www.maelstrom-research.org/mica/network/ialsa#/}{Jeffrey Kaye}, and +\href{https://www.maelstrom-research.org/mica/individual-study/mrc-nshd#/}{Diana Kuh}) +and previously funded by NIH/NIA (\href{https://projectreporter.nih.gov/project_info_description.cfm?aid=7210005&icde=19139556&ddparam=&ddvalue=&ddsub=&cr=5&csb=default&cs=ASC}{R01AG026453}; 2007-2013) and CIHR (103284; 2010-2013). } \author{ -\href{http://scholar.google.com/citations?user=ffsJTC0AAAAJ}{William Howard Beasley} - --Assistant Professor of Research, \href{http://find.ouhsc.edu/Faculty.aspx?FacultyID=1064}{University of Oklahoma Health Sciences Center}, - \href{http://www.oumedicine.com/pediatrics}{Dept of Pediatrics}, Biomedical and Behavioral Methodology Core (\href{http://ouhsc.edu/bbmc/}{BBMC}) - - +\href{http://scholar.google.com/citations?user=ffsJTC0AAAAJ}{William Howard Beasley} + --Associate Professor of Research, \href{http://find.ouhsc.edu/Faculty.aspx?FacultyID=1064}{University of Oklahoma Health Sciences Center}, + \href{https://www.oumedicine.com/department-of-pediatrics}{Dept of Pediatrics}, Biomedical and Behavioral Methodology Core (\href{https://ouhsc.edu/bbmc/}{BBMC}) + + \href{https://www.researchgate.net/profile/Andrey_Koval}{Andrey Koval} --Post Doc, \href{http://www.uvic.ca/}{University of Victoria}, \href{http://www.uvic.ca/socialsciences/psychology/}{Department of Psychology} } diff --git a/utility/create-package.R b/utility/create-package.R index 200a220..46a2d9c 100644 --- a/utility/create-package.R +++ b/utility/create-package.R @@ -1,7 +1,7 @@ library(devtools) devtools::create(path=file.path(getwd(), "seed") ,check=TRUE, description=list( "Title" = "Synthesizing Information Across Collaborating Research", - "Description" = "Synthesizing information across collaborating research. Created for Integrative Analysis of Longitudinal Studies of Aging (http://www.ialsa.org/).", + "Description" = "Synthesizing information across collaborating research. Created for Integrative Analysis of Longitudinal Studies of Aging (https://www.maelstrom-research.org/mica/network/ialsa#/).", "Date" = "2015-04-29", "Author" = "Will Beasley", "Maintainer" = "'Will Beasley' "