`getVectorIndex()` Calculates vector index from pools and collections data
getVectorIndex(
collections,
pools,
interval,
target_disease,
pt_estimate,
scale = 1000,
agency = NULL,
species = NULL,
trap = NULL,
sex = NULL,
trapnight_min = 1,
trapnight_max = NULL,
separate_by = NULL
)Dataframe containing the vector index calculation
Collections data retrieved from `getArthroCollections()`
Pools data retrieved from `getPools()`
Calculation interval for vector index, accepts “collection_date”,“Biweek”,“Week”, and “Month
The disease to calculate infection rate for–i.e. “WNV”. Disease acronyms are the accepted input. To see a list of disease acronyms, run `unique(pools$target_acronym)`
The estimation type for infection rate. Options include: “mle”,“bc-”mle”, “mir”
Constant to multiply infection rate, default is 1000
An optional vector for filtering agency by character code
An optional vector for filtering species. Species_display_name is the accepted notation.To see a list of species present in your data run unique(collections$species_display_name). If species is unspecified, the default NULL will return data for all species in data.
An optional vector for filtering trap type by acronym. Trap_acronym is the is the accepted notation. Run unique(collections$trap_acronym) to see trap types present in your data. If trap is unspecified, the default NULL will return data for all trap types.
An optional vector for filtering sex type. Accepts 'male', 'female',or 'other'. If sex is unspecified, the default NULL will return data for female sex.
Minimum trap night restriction for calculation. Default is 1.
Maximum trap night restriction for calculation. Default is no restriction.
Separate/group the calculation by 'trap','species' or 'agency'. Default NULL does not separate.
getVectorIndex(collections=sample_collections,
pools=sample_pools, interval="Month", target_disease = "WNV", pt_estimate="mle")
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