Package index

Core Analysis Functions

Main workflow functions for nutrient balance analysis

run_builtin_analysis()

Complete Manureshed Analysis Workflow (Built-in Data)

quick_analysis()

Quick Analysis with Visualization

batch_analysis_years()

Batch Analysis Across Multiple Years

batch_analysis_enhanced()

Enhanced Batch Analysis with Full Visualizations

batch_analysis_parallel()

Batch Analysis with Parallel Processing

benchmark_analysis()

Benchmark Analysis Performance

Scenario Comparison

Compare multiple analysis scenarios

compare_scenarios()

Compare Multiple Analysis Scenarios

compare_analyses()

Compare Two Analysis Results

extract_scenario_metrics()

Extract Metrics from Analysis Results

Interactive Dashboard

Launch interactive Shiny interface

launch_dashboard()

Launch Interactive Manureshed Dashboard

State-Level Analysis

Analyze specific states or regions

run_state_analysis()

Run State-Level Analysis

quick_state_analysis()

Quick State Analysis with Visualization

get_state_fips()

Get State FIPS Code

filter_by_state()

Filter Data by State

Data Loading Functions

Load and prepare data for analysis

load_builtin_nugis()

Load Built-in NuGIS Data from OSF

load_builtin_wwtp()

Load Built-in WWTP Data from OSF

load_builtin_boundaries()

Load Built-in Spatial Boundaries from OSF

load_user_wwtp()

Load User WWTP Data

load_texas_huc8_data()

Load Texas HUC8 Data from OSF

load_texas_huc8_boundaries()

Load Texas HUC8 Boundaries from OSF

check_builtin_data()

Check Data Availability from OSF

download_all_data()

Download All Datasets from OSF

download_osf_data()

Download and Cache Data from OSF

clear_data_cache()

Clear Data Cache

list_available_years()

List Available Built-in Years

WWTP Data Functions

Process wastewater treatment plant data

wwtp_clean_data()

Clean WWTP Data

wwtp_filter_positive_loads()

Filter WWTP Data for Positive Loads

wwtp_classify_sources()

Classify WWTP Sources by Load Size

wwtp_aggregate_by_boundaries()

Aggregate WWTP Data by Spatial Boundaries

wwtp_to_spatial()

Convert WWTP Data to Spatial Format

wwtp_process_complete()

Complete WWTP Processing Pipeline

map_wwtp_columns()

Map WWTP Column Names to Standard Format

Agricultural Classification

Agricultural nutrient balance calculations and classification

agri_process_nugis()

Process NuGIS Data for Manureshed Analysis

agri_classify_nitrogen()

Classify Agricultural Nitrogen Status

agri_classify_phosphorus()

Classify Agricultural Phosphorus Status

agri_classify_complete()

Complete Agricultural Classification Pipeline

agri_classify_nitrogen_custom()

Classify Agricultural Nitrogen Status with Custom Efficiency Factor

agri_classify_phosphorus_custom()

Classify Agricultural Phosphorus Status with Custom Efficiency Factor

agri_classify_complete_custom()

Complete Agricultural Classification Pipeline with Custom Efficiency Factors

Integration Functions

Combine agricultural and WWTP data

integrate_wwtp_agricultural()

Integrate WWTP Data with Agricultural Classifications (Updated)

integrate_complete()

Complete Integration Pipeline (Updated)

add_texas_huc8()

Add Texas HUC8 Data (Updated for OSF)

Visualization Functions

Create maps and plots

map_agricultural_classification()

Create Agricultural Classification Map

map_wwtp_points()

Create WWTP Point Map

map_wwtp_influence()

Create WWTP Influence Map

create_network_plot()

Create Network Plot from Transition Probabilities

plot_before_after_comparison()

Create Before/After Comparison Plot

plot_impact_ratios()

Create Impact Ratio Plot

plot_absolute_changes()

Create Absolute Change Plot

create_classification_trend_plot()

Create Classification Trend Plot

create_stacked_area_plot()

Create Stacked Area Plot

create_yoy_change_plot()

Create Year-over-Year Change Plot

create_year_comparison_plots()

Create Year-over-Year Comparison Plots

Spatial Analysis

Spatial operations and transition analysis

add_centroid_coordinates()

Add Centroid Coordinates to Spatial Data

calculate_transition_probabilities()

Calculate Spatial Transition Probabilities

save_transition_matrix()

Save Transition Probability Matrix

get_state_boundaries()

Get State Boundaries for Mapping

File I/O Functions

Save and export analysis results

save_spatial_data()

Save Spatial Data

save_centroid_data()

Save Centroid Data

save_plot()

Save Plot

save_analysis_summary()

Save Analysis Summary

export_for_gis()

Export Results for GIS Applications

export_for_policy()

Export for Policy Briefs

export_for_publication()

Export for Publication

Reporting Functions

Generate analysis reports

create_analysis_report()

Create Analysis Report

create_batch_summary_report()

Create Batch Summary Report

create_classification_summary()

Create Classification Summary Table

create_comparison_summary()

Create Comparison Summary Statistics

create_comprehensive_comparisons()

Create Comprehensive Batch Comparisons

generate_report_content()

Generate Report Content

summarize_results()

Print Summary of Analysis Results

Comparison and Plotting

Additional comparison tools

create_comparison_plots()

Create Comparison Plots

extract_trend_data()

Extract Trend Data from Batch Results

Utility Functions

Helper functions and data validation

quick_check()

Quick Data Check

health_check()

Check Package Health and Dependencies

test_osf_connection()

Test OSF Connection

citation_info()

Display Package Citation Information

get_nutrient_colors()

Default Color Schemes for Nutrient Classifications

get_cropland_threshold()

Get Cropland Threshold by Scale

calculate_cropland_threshold()

Calculate Cropland Threshold for Exclusion

format_huc8()

Format HUC8 Codes

clean_text()

Clean Text Data

clean_category_names()

Clean Category Names for Display

validate_columns()

Validate Required Columns

convert_load_units()

Convert Load Units to Tons

Constants and Data

Package constants and reference data

MANURESHED_CRS

Standard CRS for Manureshed Analysis

KG_TO_TONS

Conversion Factor: Kilograms to US Tons

LBS_TO_KG

Conversion Factor: Pounds to Kilograms

LBS_TO_TONS

Conversion Factor: Pounds to US Tons

P2O5_TO_P

Conversion Factor: P2O5 to P

CONUS_STATES

CONUS States

data_sources

NuGIS and EPA WWTP Data Sources

Package Information

Package metadata and help

manureshed-package manureshed

manureshed: Manureshed Analysis with WWTP Integration