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Multivariate Dose-Response Meta-Analysis (dosresmeta)

The package dosresmeta consists of a collection of functions to estimate dose-response relations from summarized dose-response data for both continuous and binary outcomes, and to combine them according to principles of (multivariate) random-effects model. The methodology is illustrated in the referenced article.

Info on the dosresmeta package

The package is available on the Comprehensive R Archive Network (CRAN), with info at the related web page (https://CRAN.R-project.org/package=dosresmeta). A development website is available on GitHub (https://github.com/alecri/dosresmeta).

For a short summary of the package, refer to the main help page by typing:

help("dosresmeta-package")

in R after installation (see below).

Installation

The last version officially released on CRAN can be installed directly within R by typing:

install.packages("dosresmeta")

A version still under developement is avaiable on GitHub and can be installed by typing:

install.packages("devtools")
devtools::install_github("alecri/dosresmeta")

R code in published articles

Several peer-reviewed articles and documents provide R code illustrating methodological developments or replicating substantive results. An updated version of the code can be found at the GitHub (https://github.com/alecri) or personal web page (https://alecri.github.io/software/dosresmeta.html) of the package maintainer.

References:

Crippa A, Orsini N. Multivariate Dose-Response Meta-Analysis: the dosresmeta R Package. Journal of Statistical Software, Code Snippets,. 2016; 72(1), 1-15. doi:10.18637/jss.v072.c01. [freely available here]

Crippa A, Orsini N. Dose-response meta-analysis of differences in means. BMC Medical Research Methodology. 2016 Aug 2;16(1):91. [freely available here] [GitHub repository at this link]

Discacciati A, Crippa A, Orsini N. Goodness of fit tools for dose-response meta-analysis of binary outcomes. Research Synthesis Methods. 2015 Jan 1. doi: 10.1002/jrsm.1194. [freely available here] [GitHub repository at this link]

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Version

Install

install.packages('dosresmeta')

Monthly Downloads

405

Version

2.0.1

License

GPL-2

Maintainer

Alessio Crippa

Last Published

September 12th, 2017

Functions in dosresmeta (2.0.1)

ci_ex

Cumulative incidence data on high-fat dairy food and colorectal cancer risk
coef.dosresmeta

Extract Coefficients and (Co)Variance Matrix from dosresmeta Objects
bmi_rc

Four case-control studies on the relation between Body Mass Index and renal cell cancer
cc_ex

Case-control data on alcohol and breast cancer risk
alcohol_esoph

Fourteen case-control studies on the relation between alcohol consumption and esophageal cancer
alcohol_lc

Four published studies on the relation between alcohol intake and lung cancer.
ari

Five clinical trials on the relation between aripiprazole and schizophrenia
blup.dosresmeta

Best Linear Unbiased Predictions from dosresmeta Models
alcohol_crc

Eight published studies on the relation between alcohol intake and colon-rectal cancer.
alcohol_cvd

Six published studies on the relation between alcohol intake and cardiovascular disease risk.
dosresmeta.control

Ancillary Parameters for Controlling the Fit in dosresmeta Models
dosresmeta.fixed

Fixed-Effects Estimator for dosresmeta Models
covar.logrr

Computes the covariance matrix for a set of log relative risks
covar.smd

Computes mean and standardized mean differences for continuous outcome with corresponding co(variance) matrix
dosresmeta.ml

ML and REML Estimators for dosresmeta Models
dosresmetaObject

dosresmeta Object
dosresmeta-package

Multivariate dose-response meta-analysis
dosresmeta

Multivariate Dose-Response Meta-Analysis
fish_ra

Six studies on the relation between fish consumption and rheumatoid arthritis risk
fpgrid

Grid with combinations of p for two-order fractional polynomials
mlprof.fun

Likelihood Functions for dosresmeta Models
oc_breast

Twenty-two case-control studies on the relation between oral contraceptives use and breast cancer
coffee_mort

Twenty-one prospective studies on the relation between coffee consumption and all-cause mortality
coffee_stroke

Eleven prospective studies on the relation between coffee consumption and stroke risk
grl

Approximating effective-counts as proposed by Greenland & Longnecker
hamling

Approximating effective-counts as proposed by Hamling
milk_mort

Eleven prospective studies on the relation between milk consumption and all-cause mortality
milk_ov

Nine studies on the relation between milk consumption and ovarian cancer
ir_ex

Incidence-rate data on fiber intake and coronary heart disease risk
logLik.dosresmeta

Extract Log-Likelihood from dosresmeta Objects
sim_os

Simulated data for one-stage dose-response meta-analysis
print.dosresmeta

Summarizing dosresmeta Models
coffee_cancer

Eight prospective studies on the relation between coffee consumption and cancer mortality
coffee_cvd

Thirteen prospective studies on the relation between coffee consumption and cardiovascular mortality
fracpol

Fractional Polynomials
gof

Computes statistics to evaluate the goodness-of-fit from dosresmeta Objects
predict.dosresmeta

Predicted Values from dosresmeta Models
process_bc

Ten studies on the relation between processed meat and bladder cancer
qtest.dosresmeta

Cochran Q Test of Heterogeneity for dosresmeta Models
vpc

Variance Partition Components for dosresmeta Objects
waldtest

Wald Test for Model Coefficients
red_bc

Twelve studies on the relation between red meat and bladder cancer