occspecrich_difference: difference in species richness to reference environmental...

In sustainablefarms/msod: Multispecies Occupancy Detection Models

difference in species richness to reference environmental variables.

Description

difference in species richness to reference environmental variables.

Usage

occspecrich_difference(fit, Xocc, refXocc, sameLVvalues = TRUE)

Examples

fit <- readRDS("../sflddata/private/data/testdata/cutfit_7_4_11_2LV.rds")
fit <- readRDS("../Experiments/7_4_modelrefinement/fittedmodels/7_4_13_model_2lv_e13.rds")
fit <- translatefit(fit)
Xocc <- unstandardise.designmatprocess(fit$XoccProcess, fit$data$Xocc[10, , drop = FALSE])
refXocc <- colMeans(unstandardise.designmatprocess(fit$XoccProcess, fit$data$Xocc[, , drop = FALSE]))
refXocc["NMdetected"] <- 1
refXocc <- t(refXocc)
refXocc <- as.data.frame(refXocc)
occspecrich_difference(fit, Xocc, refXocc)
refXocc <- Xocc
refXocc$woody500m <- 2
refXocc$NMdetected <- 1
refXocc$MaxTWarmMonth <- 370
occspecrich_difference(fit, Xocc, refXocc)

sustainablefarms/msod documentation built on March 6, 2023, 7:17 a.m.