orchaRd 2.0 : an R package for visualising meta-analyses with orchard plots

2023
journal article
article
23
cris.lastimport.wos2024-04-10T00:12:51Z
dc.abstract.en1. Although meta-analysis has become an essential tool in ecology and evolution, reporting of meta-analytic results can still be much improved. To aid this, we have introduced the orchard plot, which presents not only overall estimates and their confidence intervals, but also shows corresponding heterogeneity (as prediction intervals) and individual effect sizes. 2. Here, we have added significant enhancements by integrating many new functionalities into orchaRd 2.0. This updated version allows the visualisation of heteroscedasticity (different variances across levels of a categorical moderator), marginal estimates (e.g. marginalising out effects other than the one visualised), conditional estimates (i.e. estimates of different groups conditioned upon specific values of a continuous variable) and visualisations of all types of interactions between two categorical/continuous moderators. 3. orchaRd 2.0 has additional functions which calculate key statistics from multilevel meta-analytic models such as $I^{2}$ and $R^{2}$. Importantly, orchaRd 2.0 contributes to better reporting by complying with PRISMA-EcoEvo (preferred reporting items for systematic reviews and meta-analyses in ecology and evolution). Taken together, orchaRd 2.0 can improve the presentation of meta-analytic results and facilitate the exploration of previously neglected patterns. 4. In addition, as a part of a literature survey, we found that graphical packages are rarely cited (~3%). We plea that researchers credit developers and maintainers of graphical packages, for example, by citations in a figure legend, acknowledging the use of relevant packages.pl
dc.affiliationWydział Biologii : Instytut Nauk o Środowiskupl
dc.contributor.authorNakagawa, Shinichipl
dc.contributor.authorLagisz, Malgorzatapl
dc.contributor.authorO'Dea, Rose E.pl
dc.contributor.authorPottier, Patricepl
dc.contributor.authorRutkowska, Joanna - 131733 pl
dc.contributor.authorSenior, Alistair M.pl
dc.contributor.authorYang, Yefengpl
dc.contributor.authorNoble, Daniel W. A.pl
dc.date.accessioned2023-09-18T09:47:46Z
dc.date.available2023-09-18T09:47:46Z
dc.date.issued2023pl
dc.date.openaccess0
dc.description.accesstimew momencie opublikowania
dc.description.additionalBibliogr. s. 2010pl
dc.description.number8pl
dc.description.physical2003-2010pl
dc.description.versionostateczna wersja wydawcy
dc.description.volume14pl
dc.identifier.doi10.1111/2041-210X.14152pl
dc.identifier.eissn2041-210Xpl
dc.identifier.urihttps://ruj.uj.edu.pl/xmlui/handle/item/319172
dc.languageengpl
dc.language.containerengpl
dc.rightsUdzielam licencji. Uznanie autorstwa 4.0 Międzynarodowa*
dc.rights.licenceCC-BY
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/legalcode.pl*
dc.share.typeotwarte czasopismo
dc.subject.encaterpillar plotpl
dc.subject.encredibility intervalpl
dc.subject.encredible intervalpl
dc.subject.enevidence synthesispl
dc.subject.engraphical toolspl
dc.subject.enmeta- regressionpl
dc.subject.ensummary forest plotpl
dc.subtypeArticlepl
dc.titleorchaRd 2.0 : an R package for visualising meta-analyses with orchard plotspl
dc.title.journalMethods in Ecology and Evolutionpl
dc.title.volumeContemporary methods for studying animal sociality in the wildpl
dc.typeJournalArticlepl
dspace.entity.typePublication
cris.lastimport.wos
2024-04-10T00:12:51Z
dc.abstract.enpl
1. Although meta-analysis has become an essential tool in ecology and evolution, reporting of meta-analytic results can still be much improved. To aid this, we have introduced the orchard plot, which presents not only overall estimates and their confidence intervals, but also shows corresponding heterogeneity (as prediction intervals) and individual effect sizes. 2. Here, we have added significant enhancements by integrating many new functionalities into orchaRd 2.0. This updated version allows the visualisation of heteroscedasticity (different variances across levels of a categorical moderator), marginal estimates (e.g. marginalising out effects other than the one visualised), conditional estimates (i.e. estimates of different groups conditioned upon specific values of a continuous variable) and visualisations of all types of interactions between two categorical/continuous moderators. 3. orchaRd 2.0 has additional functions which calculate key statistics from multilevel meta-analytic models such as $I^{2}$ and $R^{2}$. Importantly, orchaRd 2.0 contributes to better reporting by complying with PRISMA-EcoEvo (preferred reporting items for systematic reviews and meta-analyses in ecology and evolution). Taken together, orchaRd 2.0 can improve the presentation of meta-analytic results and facilitate the exploration of previously neglected patterns. 4. In addition, as a part of a literature survey, we found that graphical packages are rarely cited (~3%). We plea that researchers credit developers and maintainers of graphical packages, for example, by citations in a figure legend, acknowledging the use of relevant packages.
dc.affiliationpl
Wydział Biologii : Instytut Nauk o Środowisku
dc.contributor.authorpl
Nakagawa, Shinichi
dc.contributor.authorpl
Lagisz, Malgorzata
dc.contributor.authorpl
O'Dea, Rose E.
dc.contributor.authorpl
Pottier, Patrice
dc.contributor.authorpl
Rutkowska, Joanna - 131733
dc.contributor.authorpl
Senior, Alistair M.
dc.contributor.authorpl
Yang, Yefeng
dc.contributor.authorpl
Noble, Daniel W. A.
dc.date.accessioned
2023-09-18T09:47:46Z
dc.date.available
2023-09-18T09:47:46Z
dc.date.issuedpl
2023
dc.date.openaccess
0
dc.description.accesstime
w momencie opublikowania
dc.description.additionalpl
Bibliogr. s. 2010
dc.description.numberpl
8
dc.description.physicalpl
2003-2010
dc.description.version
ostateczna wersja wydawcy
dc.description.volumepl
14
dc.identifier.doipl
10.1111/2041-210X.14152
dc.identifier.eissnpl
2041-210X
dc.identifier.uri
https://ruj.uj.edu.pl/xmlui/handle/item/319172
dc.languagepl
eng
dc.language.containerpl
eng
dc.rights*
Udzielam licencji. Uznanie autorstwa 4.0 Międzynarodowa
dc.rights.licence
CC-BY
dc.rights.uri*
http://creativecommons.org/licenses/by/4.0/legalcode.pl
dc.share.type
otwarte czasopismo
dc.subject.enpl
caterpillar plot
dc.subject.enpl
credibility interval
dc.subject.enpl
credible interval
dc.subject.enpl
evidence synthesis
dc.subject.enpl
graphical tools
dc.subject.enpl
meta- regression
dc.subject.enpl
summary forest plot
dc.subtypepl
Article
dc.titlepl
orchaRd 2.0 : an R package for visualising meta-analyses with orchard plots
dc.title.journalpl
Methods in Ecology and Evolution
dc.title.volumepl
Contemporary methods for studying animal sociality in the wild
dc.typepl
JournalArticle
dspace.entity.type
Publication
Affiliations

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