introduction.R
In spmodel: Spatial Statistical Modeling and Prediction

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# # jss style
# knitr::opts_chunk$set(prompt=TRUE, echo = TRUE, highlight = FALSE, continue = " + ", comment = "")
# options(replace.assign=TRUE, width=90, prompt="R> ")

# rmd style
knitr::opts_chunk$set(collapse = FALSE, comment = "#>", warning = FALSE, message = FALSE)

# load packages
library(ggplot2)
library(spmodel)

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#  library(spmodel)

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citation(package = "spmodel")

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#  library(ggplot2)

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moss

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ggplot(moss, aes(color = log_Zn)) +
  geom_sf() +
  scale_color_viridis_c()

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spmod <- splm(log_Zn ~ log_dist2road, data = moss, spcov_type = "exponential")

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print(spmod)

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summary(spmod)

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tidy(spmod)

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glance(spmod)

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lmod <- splm(log_Zn ~ log_dist2road, data = moss, spcov_type = "none")
glances(spmod, lmod)

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augment(spmod)

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ggplot(sulfate, aes(color = sulfate)) +
  geom_sf(size = 2) +
  scale_color_viridis_c(limits = c(0, 45))

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sulfmod <- splm(sulfate ~ 1, data = sulfate, spcov_type =  "spherical")

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sulfate_preds$preds <- predict(sulfmod, newdata = sulfate_preds)

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ggplot(sulfate_preds, aes(color = preds)) +
  geom_sf(size = 2) +
  scale_color_viridis_c(limits = c(0, 45))

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sulfate_preds$preds <- NULL

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augment(sulfmod, newdata = sulfate_preds)

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augment(sulfmod, newdata = sulfate_preds, interval = "prediction")

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caribou

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cariboumod <- splm(z ~ water + tarp, data = caribou,
                   spcov_type = "exponential", xcoord = x, ycoord = y)

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anova(cariboumod)

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moose

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ggplot(moose, aes(color = presence)) +
  scale_color_viridis_d(option = "H") +
  geom_sf(size = 2) 

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binmod <- spglm(presence ~ elev, family = "binomial",
                data  = moose, spcov_type = "exponential")

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print(binmod)

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summary(binmod)

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tidy(binmod)

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glance(binmod)

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glmod <- spglm(presence ~ elev, family = "binomial", data = moose, spcov_type = "none")
glances(binmod, glmod)

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augment(binmod)

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moose_preds$preds <- predict(binmod, newdata = moose_preds, type = "response")

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ggplot(moose_preds, aes(color = preds)) + 
  geom_sf(size = 2) +
  scale_color_viridis_c(limits = c(0, 1), option = "H")

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moose_preds$preds <- NULL
augment(binmod, newdata = moose_preds, type.predict = "response", interval = "prediction")