Package: cowfootR 0.1.3

Function Overview | 1. calc_emissions_enteric() Parameters | Required Parameters | Animal Characteristics | Production System | Feed Parameters | Methodology Control | 2. calc_emissions_manure() Parameters | Manure System | Tier 2 Specific | Nitrogen Management | 3. calc_emissions_soil() Parameters | Nitrogen Inputs | Site Conditions | Emission Factors | 4. calc_emissions_energy() Parameters | Fuel Consumption | Location and Factors | Grid Emission Factors (Built-in) | 5. calc_emissions_inputs() Parameters | Feed Inputs | Other Inputs | Regional Factors | Advanced Options | 6. calc_intensity_litre() Parameters | Milk Composition | FPCM Calculation Formula | 7. calc_intensity_area() Parameters | Area Breakdown | Valid area_breakdown Names | Validation | 8. calc_batch() Parameters | Data Input | Template Column Requirements | Processing Options | 9. Parameter Validation and Quality Control | Automatic Validations | Data Quality Indicators | 10. Common Parameter Issues and Solutions | Missing Data Handling | Unit Conversion Guide | Regional Parameter Adjustments | 11. Parameter Sensitivity Rankings | High Impact Parameters (>15% result change) | Medium Impact Parameters (5-15% result change) | Low Impact Parameters (<5% result change) | 12. Troubleshooting Common Issues | Error Messages and Solutions | Performance Optimization | 13. Advanced Parameter Combinations | Tier 2 Optimal Parameter Sets | Parameter Interaction Effects | 14. Data Collection Protocols | Minimum Data Requirements by Objective | Data Collection Schedule | 15. Quality Assurance Framework | Validation Hierarchy | Red Flag Indicators | Conclusion

What does cowfootR do? | Installation and loading the package | Step 1: Define system boundaries | Units and reporting basis | Step 2: Calculate emissions by source | Enteric fermentation | Manure management | Soil emissions | Energy use | Purchased inputs | Step 3: Aggregate total emissions | Step 4: Calculate intensity metrics | Milk intensity | Area intensity | Interpreting results | What’s next? | Summary

Overview | How to Use This Vignette | Theoretical Background | Life Cycle Assessment in Dairy Production | Key Emission Sources in Dairy Systems | System Boundaries | Functional Units and Intensity Metrics | Getting Started with cowfootR | Installation | Loading the Package | Input Data Structure | Basic Workflow | Data Requirements: Required vs Optional | Required Data | Optional but Recommended Data | Example: Basic Farm Assessment | Step 1: Define System Boundaries | Step 2: Basic Farm Data | Step 3: Calculate Emissions by Source | Enteric Fermentation | Manure Management | Soil Emissions | Energy Use | Purchased Inputs | Step 4: Aggregate Total Emissions | Step 5: Calculate Intensity Metrics | Milk Intensity | Area Intensity | Visualizing Results | Emission Source Breakdown | Intensity Comparison | Understanding the Results | Interpreting Emission Factors | Benchmarking Performance | Common Issues | Next Steps | Key Takeaways

Understanding IPCC Methodology Tiers | Data Requirements Analysis | Tier 1 Data Needs | Tier 2 Additional Requirements | Input columns used by calc_batch() for Tier 2 calculations | Core required columns (all tiers) | Tier 2–relevant optional columns by emission source | Enteric fermentation (Tier 2 refinement) | Young stock (optional refinement) | Manure management (Tier 2 refinement) | Other emission sources | Complete column specification | Theoretical Background | IPCC Tier System Overview | Key Differences in Dairy Applications | Methodological Differences by Emission Source | Enteric Fermentation | Tier 1 Approach | Tier 2 Approach | Manure Management | Tier 1 vs Tier 2 Comparison | Comprehensive Farm Comparison | Farm Profile | Tier 1 Assessment | Tier 2 Assessment | Results Comparison | Visualization of Differences | Impact on Intensity Metrics | Accuracy and Uncertainty | Uncertainty Ranges by Tier | Factors Affecting Accuracy | Decision Framework: When to Use Each Tier | Tier Selection Criteria | Cost-Benefit Analysis | Sensitivity Analysis | Parameter Sensitivity in Tier 2 | Impact on Farm Rankings | Practical Recommendations | Implementation Strategy | For Research and Policy | For Farm Advisors | For Farmers | Quality Assurance | Conclusions | Key Findings | Selection Guidelines

Comprehensive Single Farm Carbon Footprint Analysis | Farm Profile: Estancia Las Flores | Step 1: Define system boundaries | Step 2: Provide farm data (inputs) | Herd Composition and production | Feed and nutrition | Land use and soil management | Energy consumption | Additional purchased inputs | Step 3: Calculate emissions by source | Enteric fermentation | Key arguments. | Manure management | Soil N2O Emissions | Energy-Related Emissions | Purchased Input Emissions | Step 4: Total emissions and hotspot analysis | Visualize emission sources (bar chart) | Step 5: Intensity calculations | Milk Intensity (kg CO₂eq per kg FPCM) | Area Intensity (kg CO₂eq per ha) | Benchmarking (interpretation note) | Step 6: Scenario analysis (example) | Scenario 2: Enhanced Manure Management | Step 7: Two complementary visual summaries | Step 8: Summary table (KPI-style) | Conclusion | For multi-farm processing, see the Batch Farm Assessment vignette.

Workflow overview | What the diagram covers | Reproducibility note