Pan-European Phenological Data Analysis

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Documentation for package ‘pep725’ version 1.1.0

• DESCRIPTION file
• User guides, package vignettes and other documentation
• Package NEWS
• Package README

Help Pages

add_country	Add Country Information to a Dataset Based on Latitude/Longitude
add_daylength	Add Daylength to Phenological Data
as.pep	Coerce to PEP725 Data Object
bbch_description	Get BBCH Phase Description
calc_daylength	Calculate Daylength (Photoperiod)
calc_max_daylength	Maximum Daylength at a Latitude
calc_thermal_sum	Calculate Thermal Sum at Phenological Events
calc_thermal_units	Calculate Thermal Units (Growing Degree Days)
get_phenology_doys	Compute CTRL and SCEN Phenology Day-of-Year Values
is.pep	Test if Object is a PEP725 Data Object
kendall_tau	Mann-Kendall Z-Statistic (deprecated alias for 'mann_kendall_z')
mann_kendall_z	Mann-Kendall Z-Statistic
new_pep	Create a PEP725 Phenological Data Object
pep-class	PEP725 Phenological Data Class
pep725_demo	Demonstrate the pep725 Package Functions
pep_cache_clear	Clear Cached PEP Data
pep_cache_info	Get Cache Information
pep_check_connectivity	Check Station-Year Connectivity
pep_check_phases	Check for Expected Phenological Phases
pep_check_phases_multi	Check Multiple Phases Across Species
pep_completeness	Assess Species and Phase Completeness of Phenological Data
pep_coverage	Assess Data Coverage of PEP725 Phenological Data
pep_download	Download Synthetic PEP725 Data
pep_flag_outliers	Flag Phenological Outliers
pep_import	Import and preprocess PEP725 phenological data
pep_outliers_leaflet	Interactive Leaflet Map of Outlier-Flagged Stations
pep_plot_outliers	Visualize Phenological Outliers for Inspection
pep_quality	Assess Data Quality of Phenological Observations
pep_second_events	Detect Second Flowering and Other Repeated Phenological Events
pep_seed	Minimal Seed Dataset for Synthetic Data Generation
pep_simulate	Simulate Synthetic PEP Data
pheno_anomaly	Calculate Phenological Anomalies
pheno_combine	Create Combined Phenological Time Series
pheno_gradient	Analyze Phenological Gradients with Elevation or Latitude
pheno_leaflet	Interactive Leaflet Map to Select PEP725 Stations
pheno_map	Plot Phenology Station Maps
pheno_normals	Calculate Phenological Normals (Climatology)
pheno_plot	Plot Phenological Time Series
pheno_plot_hh	Plot Phenological Time Series for Heading and Harvest
pheno_plot_timeseries	Plot Phenological Time Series
pheno_pls	Partial Least Squares Analysis for Phenology-Temperature Relationships
pheno_regional	Compile Regional Phenology Data and Climate Sensitivity Inputs
pheno_regional_hh	Compile Regional Phenological Time Series for Heading and Harvest
pheno_synchrony	Analyze Phenological Synchrony Across Stations
pheno_trend_turning	Detect Trend Turning Points in Phenological Time Series
plot.pep	Plot Method for PEP725 Data
plot.pep_completeness	Plot Method for Completeness Assessment
plot.pep_coverage	Plot Method for PEP Coverage
plot.pep_outliers	Plot Method for Outlier Detection Results
plot.pep_quality	Plot Method for Data Quality Assessment
plot.pheno_anomaly	Plot Method for Phenological Anomalies
plot.pheno_combined	Plot Method for Combined Time Series
plot.pheno_gradient	Plot Method for Phenological Gradient Analysis
plot.pheno_normals	Plot Method for Phenological Normals
plot.pheno_pls	Plot Method for PLS Phenology Results
plot.pheno_synchrony	Plot Method for Phenological Synchrony Analysis
plot.pheno_turning	Plot Method for Trend Turning Analysis
plot.second_events	Plot Method for Second Events Detection
plot_phenology_trends	Plot Robust Phenological Trends
print.pep	Print Method for PEP725 Data
print.pep_completeness	Print Method for Completeness Assessment
print.pep_coverage	Print Method for PEP Coverage
print.pep_outliers	Print Method for Outlier Detection Results
print.pep_quality	Print Method for Data Quality Assessment
print.phase_check	Print Method for Phase Check Results
print.phase_check_multi	Print Method for Multi-Species Phase Check
print.pheno_anomaly	Print Method for Phenological Anomalies
print.pheno_combined	Print Method for Combined Time Series
print.pheno_gradient	Print Method for Phenological Gradient Analysis
print.pheno_normals	Print Method for Phenological Normals
print.pheno_pls	Print Method for PLS Phenology Results
print.pheno_synchrony	Print Method for Phenological Synchrony Analysis
print.pheno_turning	Print Method for Trend Turning Analysis
print.second_events	Print Method for Second Events Detection
select_phase	Select and Label Phenophases from PEP Time Series
subspecies_report	Comprehensive Subspecies Availability Report
summarize_subspecies_availability	Summarize Subspecies Phenological Data Availability
summary.pep	Summary Method for PEP725 Data
summary.pep_completeness	Summary Method for Completeness Assessment
summary.pep_outliers	Summary Method for Outlier Detection Results
summary.pep_quality	Summary Method for Data Quality Assessment
summary.pheno_anomaly	Summary Method for Phenological Anomalies
summary.pheno_normals	Summary Method for Phenological Normals
summary.pheno_pls	Summary Method for PLS Phenology Results
summary.pheno_synchrony	Summary Method for Phenological Synchrony Analysis
summary.second_events	Summary Method for Second Events Detection
[.pep	Subset PEP725 Data While Preserving Class