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functional_rate(): Estimates instantaneous rates
of plant disease progress () and associated uncertainty from epidemic
trajectories fitted by functional_curves(). Supports
response and link scale derivatives via GAM linear predictor matrix
differences, handles boundary conditions without extrapolation, accounts
for zero-epidemic curves and negative rates, and computes key rate
phenotypes (, , growth duration, cumulative positive growth, and growth
windows). Includes S3 methods: print(),
summary(), plot(), and
augment().functional_curves(): Fixed smooth term label inspection
during prediction so that .unit experimental unit and block
random effects are correctly identified and supplied to
predict.gam().functional_contrast(), functional_summary(),
plot_dsp(), rank_dsp(),
plot_dsp_rank_heatmap(), and
simulate_dsp_data().functional_curves(): Updated the GAM formula to fit
independent smooths per treatment by default
(trt + s(time, by=trt)), avoiding artifactual drops
(“caimento”) at the tails of flat curves. Added the
global_smooth parameter to allow users to opt-in to the
previous Global-Specific smoothing behavior.simulate_dsp_data(): Adjusted the amplitudes of the
simulated suppression profiles (“Early”, “Late”, “Persistent”) to
achieve exactly a 70% reduction in AUDPC compared to the unsprayed
control, representing a realistic fungicide efficacy scenario._pkgdown.yml to include the newly exported
functional PCA and DSP functions in the “Functional Analysis” reference
index, resolving site build errors.functional_curves(), functional_distances(),
functional_pca(), functional_resistance(), and
related methods.functional_pca(): Performs functional principal
component analysis on fitted disease progress curves to decompose
variation among epidemic trajectories into orthogonal temporal
components. Includes plotting and extractor functions.functional_curves(): Fits genotype-specific epidemic
trajectories using GAM, with support for genotype-level covariates.functional_distances(): Computes pairwise functional
distances among fitted curves and performs hierarchical clustering and
permutation testing.functional_resistance(): Calculates Functional
Resistance Index (FRI) and Stability-Adjusted Functional Resistance
Index (SAFRI) with support for stratified rankings and
bootstrap-supported classification.suggest_k(): Helper function to recommend GAM smoothing
parameters (k_smooth, k_trt,
k_env, gamma) based on data structure;
supports tidy-eval column names and can infer replication from a data
frame.heading_group) to adjust functional curves and resistance
rankings, allowing for better distinction between genetic resistance and
phenological escape.diagnose_curves(), plot_curves(),
and plot_dendrogram() to support the new functional
analysis object classes.functional_instability() for computing normalized
functional instability (NFI) of genotype-by-environment epidemic curves,
with optional decomposition into spatial and temporal components.plot_functional_instability() for visualizing
overall, spatial, and temporal NFI results as bar charts.get_era5() for retrieving ERA5 reanalysis weather
data via Open-Meteo API.get_brdwgd() for extracting daily weather data
from the Brazilian Daily Weather Gridded Data (BR-DWGD) NetCDF
files.r4pde package.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.