Data sets

aphids

Counts of aphids.

arthropods

Counts of arthropods.

citrus_ctv

Incidence of citrus tristeza virus (CTV) disease in three fields.

codling_moths

Count of codling moth larvae.

dogwood_anthracnose

Incidence of dogwood anthracnose.

hop_viruses

Incidence of three viruses in an Australian hop garden.

offspring_survival

Offspring survival of rats experiencing different diets.

onion_bacterial_blight

Incidence of bacterial blight of onion.

pyrethrum_ray_blight

Incidence of ray blight disease of pyrethrum.

simulated_epidemics

Examples of simulated epidemic data.

tobacco_viruses

Incidence of tobacco plants infected with viruses.

tomato_tswv

Incidence of tomato spotted wilt virus (TSWV) disease in field trials.

Disease intensity objects

Create and manipulate disease intensity objects (i.e., count, incidence and severity objects).

as.data.frame(<intensity>)

Coerce to a data frame.

clump()

Regroup observational data into even clumps of individuals.

count() incidence() severity()

Construct count, incidence and severity objects.

is.intensity() is.count() is.incidence() is.severity()

Test if an object is of class intensity or one of its subclasses.

mapped_var() `mapped_var<-`()

Existing variable mappings.

mapping() mapping_() remap()

Construct data mappings.

split(<intensity>)

Divide into groups and reassemble.

Statistical methods

agg_index()

Several aggregation indices.

calpha.test()

C(alpha) test.

chisq.test()

Chi-squared test.

fit_two_distr()

Maximum likelihood fitting of two distributions and goodness-of-fit comparison.

mapcomp()

Map Comparison procedure.

power_law()

Taylor's and binary power laws.

sadie()

Spatial Analysis by Distance IndicEs (SADIE).

spatial_hier()

Spatial hierarchy analysis.

z.test()

Z-test.

Miscellaneous

Mainly helper functions.

a2a()

Easily switch between different power law formulations.

dbetabinom() pbetabinom() qbetabinom() rbetabinom()

The beta-binomial distribution.

logit() probit() cloglog()

Some link functions.

threshold()

To go to higher level in the hierarchy.