Package: metaumbrella 1.1.0

Corentin J Gosling

metaumbrella: Umbrella Review Package for R

A comprehensive range of facilities to perform umbrella reviews with stratification of the evidence in R. The package accomplishes this aim by building on three core functions that: (i) automatically perform all required calculations in an umbrella review (including but not limited to meta-analyses), (ii) stratify evidence according to various classification criteria, and (iii) generate a visual representation of the results. Note that if you are not familiar with R, the core features of this package are available from a web browser (<https://www.metaumbrella.org/>).

Authors:Corentin J Gosling [aut, cre], Aleix Solanes [aut], Paolo Fusar-Poli [aut], Joaquim Radua [aut]

metaumbrella_1.1.0.tar.gz
metaumbrella_1.1.0.tar.gz(r-4.7-any)metaumbrella_1.1.0.tar.gz(r-4.6-any)
metaumbrella_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
metaumbrella/json (API)

# Install 'metaumbrella' in R:
install.packages('metaumbrella', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • df.HR - Meta-analyses exploring the efficacy of several interventions on a binary outcome.
  • df.IRR - Meta-analysis exploring adverse events of smoking.
  • df.MC - Meta-analyses exploring the efficacy of an intervention on a continuous outcome measured before and after the intervention.
  • df.MD - Meta-analyses exploring the efficacy of surgical and pharmacological interventions.
  • df.OR - Meta-analyses exploring a risk factor for neurodevelopmental disorders.
  • df.OR.multi - Meta-analysis of RCTs assessing different dietary interventions on a binary outcome.
  • df.R - Meta-analyses of correlational data
  • df.radua2019 - Meta-analyses exploring the risk factors for posttraumatic stress disorder.
  • df.RR - Meta-analysis of the adverse events of antidepressants.
  • df.SMC - Meta-analyses exploring the efficacy of an intervention on a continuous outcome measured before and after the intervention.
  • df.SMD - Meta-analyses exploring the efficacy of surgical and pharmacological interventions.
  • df.train - Training dataset

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

4.55 score 11 stars 16 scripts 428 downloads 14 exports 111 dependencies

Last updated from:9072939259. Checks:2 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64NOTE218
source / vignettesOK466
linux-release-x86_64NOTE214
wasm-releaseOK152

Exports:add.evidencedrop.evidenceesb.testforestforest.data.frameforest.umbrellaoverlap.primsubset.umbrellasummary.umbrellaumbrellaumbrella.guiumbrella.xlsunion.umbrellaview.errors.umbrella

Dependencies:backportsbase64encbitbit64bootbslibcachemcellrangercheckmateclicliprcompareDFCompQuadFormcpp11crayoncurldata.tabledigestdplyrestimrawevaluatefarverfastmapfontawesomeforcatsforeignfsgenericsggplot2gluegtablehavenhighrhmshtmlTablehtmltoolshtmlwidgetsisobandjquerylibjsonliteknitrlabelinglatticelifecyclelme4magrittrMASSmathjaxrMatrixmemoisemetametabookmetaConvertmetadatmetaformimeminqamvtnormnlmenloptrnumDerivopenxlsxpbapplypillarpkgconfigpowerSurvEpipracmaprettyunitsprogresspurrrpwrR.methodsS3R.ooR.utilsR6rappdirsrbibutilsRColorBrewerRcppRcppEigenRdpackreadrreadxlreformulasrematchriorlangrmarkdownrstudioapiS7sassscalesstringistringrsurvivaltibbletidyrtidyselecttinytextzdbutf8vctrsviridisLitevroomwithrwritexlxfunxml2xtableyamlzip

Vignette 2: conduct an umbrella review with metaumbrella
Introduction | Description of the metaumbrella package | Example 1: "Ioannidis" classification | Example 2: "GRADE" classification | Example 3: "Personalized" classification | Example 4: "Personalized" classification with multilevel data
Rendered fromconduct-umbrella.Rmdusingknitr::rmarkdown

Last update: 2025-02-28
Started: 2022-06-09

Vignette 3: create a forest plot for an umbrella review with metaumbrella
Introduction | Example 1: simple forest plot | Example 2: modified forest plot (modification of column positions) | Example 3: modified forest plot (layout and subgroups)
Rendered fromgenerate-forest.Rmdusingknitr::rmarkdown

Last update: 2023-11-06
Started: 2022-06-09

Vignette 4: Details on calculations made by metaumbrella
Introduction | Umbrella calculations | Effect size measures | Meta-analytic models | Non-independence of effect sizes | Small-study effects | Test for excess statistical significance | Original Ioannidis and Trikalinos test | New excess statistical significance tests | Adaptation to various inputs | Obtention of the value of the effect size | Obtention of the variance of the effect size | Using raw information | Using the 95 percent CI | Conversions between effect size measures | Obtention of missing variables | Unrounding of extracted effect size estimates | References
Rendered fromcalculations-details.Rmdusingknitr::rmarkdown

Last update: 2023-07-01
Started: 2022-06-09

Vignette 1: prepare a well-formatted dataset with metaumbrella
Introduction | Raw data | Use of the 'view.errors.umbrella' function | Multilevel data | Reverse effect size direction | Shared control/non-exposed groups
Rendered fromformat-dataset.Rmdusingknitr::rmarkdown

Last update: 2022-06-13
Started: 2022-06-09

Readme and manuals

Help Manual

Help pageTopics
metaumbrella: An Umbrella Review Package for Rmetaumbrella-package
Add evidence classes to "umbrella" objectsadd.evidence
Meta-analyses exploring the efficacy of several interventions on a binary outcome.df.HR
Meta-analysis exploring adverse events of smoking.df.IRR
Meta-analyses exploring the efficacy of an intervention on a continuous outcome measured before and after the intervention.df.MC
Meta-analyses exploring the efficacy of surgical and pharmacological interventions.df.MD
Meta-analyses exploring a risk factor for neurodevelopmental disorders.df.OR
Meta-analysis of RCTs assessing different dietary interventions on a binary outcome.df.OR.multi
Meta-analyses of correlational datadf.R
Meta-analyses exploring the risk factors for posttraumatic stress disorder.df.radua2019
Meta-analysis of the adverse events of antidepressants.df.RR
Meta-analyses exploring the efficacy of an intervention on a continuous outcome measured before and after the intervention.df.SMC
Meta-analyses exploring the efficacy of surgical and pharmacological interventions.df.SMD
Training datasetdf.train
Remove evidence classes from an object of class "umbrella"drop.evidence
Perform some tests for excess of significanceesb.test
Forest plots for objects of class "umbrella" or "data.frame"forest
Forest plots for "umbrella" objectsforest.umbrella
Overlap in primary studies across reviewsoverlap.prim
Print a summary of an object of class "umbrella"print.umbrella
Create a subset of an object of class "umbrella"subset.umbrella
Synthesize information of an object of class "umbrella" in a dataframesummary.umbrella
Conduct the calculations for an umbrella reviewumbrella
Graphical User Interface for conducting an umbrella reviewumbrella.gui
Automatically conduct an umbrella review and export results outside of Rumbrella.xls
Union of two objects of class "umbrella"union.umbrella
Detect incorrect formatting of a datasetview.errors.umbrella