generate_map | R Documentation |
generate_map
allows you to generate a colour-coded map of species trends
for each strata. Given trends generated by generate_strata_trends
, this
function will shade in each stratum based on the percent
change in that stratum.
generate_map( trend = NULL, select = FALSE, stratify_by = NULL, slope = FALSE, species = "", col_viridis = FALSE )
trend |
Dataframe of strata trends produced by
|
select |
logical flag to indicate if the stratum data need to be selected out of an trends object that includes continental, national, or other region-types. Default is FALSE |
stratify_by |
How were the data stratified? |
slope |
Logical, if TRUE, maps values of the alternative trend metric if slope = TRUE was used in |
species |
Text, optional species name to add plot title. if left blank "" no title is added |
col_viridis |
Logical flag to use "viridis" colour-blind friendly palette. Default is FALSE |
spplot object
# Toy example with Pacific Wren sample data # First, stratify the sample data strat_data <- stratify(by = "bbs_cws", sample_data = TRUE) # Prepare the stratified data for use in a JAGS model. jags_data <- prepare_jags_data(strat_data = strat_data, species_to_run = "Pacific Wren", model = "firstdiff", min_year = 2009, max_year = 2018) # Now run a JAGS model. jags_mod <- run_model(jags_data = jags_data, n_adapt = 0, n_burnin = 0, n_iter = 10, n_thin = 1) # Generate the continental and stratum indices indices <- generate_indices(jags_mod = jags_mod, jags_data = jags_data) # Now, generate the trends trends <- generate_trends(indices = indices) # Generate the map. Set select = TRUE because we are passing a # dataframe of trends of more than just the stratum regions map <- generate_map(trend = trends, stratify_by = "bbs_cws", select = TRUE, species = "Pacific Wren")
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