Package index • r4pde

Disease Quantification

Functions for calculating disease indices and survival-based metrics.

DSI(): Calculate the Disease Severity Index (DSI) (class for each unit)

DSI2(): Calculate the Disease severity Index (DSI) (frequency of each class)

CompMuCens(): Survival analysis for quantitative ordinal scale data.

Spatial analysis

Functions to detect and quantify spatial structure in disease data.

AFSD(): Analysis of foci structure and dynamics (AFSD)

BPL(): Binary Power Law Analysis for Spatial Disease Patterns

count_subareas(): Count the Number of Ones in Subareas of a Matrix

count_subareas_random(): Random Subgrid Sampling of a Binary Matrix

join_count(): Test for Spatial Join Count Statistics

oruns_test(): Runs Test

oruns_test_byrowcol(): Runs Test for Each Row and Column of a Binary Matrix

oruns_test_boustrophedon(): Boustrophedon Run Test for Binary Matrix

windowpane(): Window Pane for Epidemiological Analysis

windowpane_tests(): Windowpane Tests for Correlation Analysis

plot_AFSD(): Plot ASFD

Disease modeling

Functions for fitting gradient models and retrieving climate data.

fit_gradients(): Fit Gradient Models to Data

get_nasapower(): Fetch NASA POWER Data for Multiple Locations with a Progress Bar

Datasets

Datasets used in the examples and analyses.

BlastWheat: BlastWheat dataset

BudBlightSoybean: BudBlightSoybean dataset

DidymellaWatermelon: DidymellaWatermelon dataset

FHBWheat: FHBWheat dataset

FusariumBanana: FusariumBanana dataset

RustSoybean: RustSoybean dataset

WhiteMoldSoybean: WhiteMoldSoybean dataset

SpatialAggregated: SpatialAggregated dataset

SpatialRandom: SpatialRandom dataset

Miscellaneous

Utility functions for plotting and customization.

theme_r4pde(): Custom ggplot2 theme based on cowplot::theme_half_open