Data and scripts for Wind is a primary driver of fungal dispersal across a mainland-island system
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2024-06-10, 2024-06-10
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Data and scripts for reproducing the analyses of Naranjo-Orrico et al Wind is a primary driver of fungal dispersal across a mainland-island system.
The file allData.RData contains the data in R format. The data include three matrices: the metadata (md), the sample x OTU table (otu.table) and the taxonomic information of the identified OTUs (taxonomy). These three files need to be loaded using the function load in R for reproducing the statistical analyses performed in the study.
The statistical analyses consist of joint species distribution modelling with the package Hmsc. To perform the analyses the three scripts need to be run consecutively from S1 to S3. S1 defines and fits the 12 models fitted in the study (which include both presence-absence and abundance models, with different variants with a different set of explanatory variables). S2 shows the parameter estimates from the fitted models, in particular the beta parameters and the variance partitioning across environmental covariates. S3 builds the predictions on species richness and community weighted spore traits in relation to the focal environmental predictors.