metagear is a comprehensive, multifunctional toolbox with capabilities aimed to cover much of the research synthesis taxonomy: from applying a systematic review approach to objectively assemble and screen the literature, to extracting data from studies, and to finally summarize and analyze these data with the statistics of meta-analysis. More information about metagear can be found at http://lajeunesse.myweb.usf.edu.
What to cite? Lajeunesse, M.J. (2016) Facilitating
systematic reviews, data extraction and meta-analysis with the metagear
package for R. Methods in Ecology and Evolution 7: 323-330. [ download
here ]
Installation and Dependencies. metagear has one
external dependency that need to be installed and loaded prior to use in R.
This is the EBImage R package (Pau et al. 2010) available only from the
Bioconductor repository: https://www.bioconductor.org.
To properly install metagear, start with the following
R script that loads the Bioconductor resources needed to install the EBImage
(also accept all of its dependencies):
install.packages("BiocManager"); BiocManager::install("EBImage"))
library(metagear) Finally for Mac OS users, installation
is sometimes not straighforward as the abstract_screener() requires the
Tcl/Tk GUI toolkit to be installed. You can get this toolkit by making sure
the latest X11 application (xQuartz) is installed from here:
http://xquartz.macosforge.org/landing/.
Pau, G., Fuchs, F., Sklyar, O., Boutros, M. and Huber, W. (2010) EBImage: an R package for image processing with applications to cellular phenotypes. Bioinformatics 26: 979-981.