Diagnostics for Soil-Plant-Microbial Redox Recovery
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Documentation for package ‘HRRI’ version 1.0.6
Help Pages
| as.data.frame.hrri_arch | Fit a conditional capacity-recovery curve (legacy function name) |
| attach_hrri_ids | Attach design identifiers to a score table with explicit alignment checks |
| benchmark_hrri | Benchmark diagnostic agreement with a simulator-defined target |
| hrri_infer_architecture | Fit a conditional capacity-recovery curve (legacy function name) |
| HRRI_workflow_example | Worked example: a complete HRRI workflow |
| plot_hrri_benchmark | Plot descriptive benchmark agreement |
| plot_rri_accuracy | Four-panel diagnostic figure for an accuracy assessment |
| plot_rri_properties | Radar Chart of Available HRRI Diagnostics |
| plot_rri_recovery_landscape | Plot a recovery landscape from RRI perturbation-recovery metrics |
| plot_rri_recovery_map | Plot RRI Recovery Map |
| plot_rri_simulation_demo | Draw the reproducible simulation demonstration |
| plot_rri_state_space | Plot domain-score space with correctly matched trajectory diagnostics |
| plot_RRI_ternary | Ternary Plot of Relative Domain Scores |
| plot_rri_timeseries | Aligned time series with separate physical units |
| plot_rri_validation | Scatter of HRRI score against a simulator-defined target |
| print.hrri_arch | Fit a conditional capacity-recovery curve (legacy function name) |
| print.hrri_arch_validation | Fit a conditional capacity-recovery curve (legacy function name) |
| print.hrri_benchmark | Benchmark diagnostic agreement with a simulator-defined target |
| print.rri_accuracy | Agreement between a score and a reference target, respecting clustering |
| redoxrri_example | Worked example: a complete HRRI workflow |
| rri_accessible_capacity | Event-window accessible reservoir capacities |
| rri_accuracy | Agreement between a score and a reference target, respecting clustering |
| rri_capacity_index | Oxidative-oriented soil feature composite |
| rri_compensation_index | Cross-domain asynchrony diagnostic |
| rri_connectivity_score | Cross-domain association or graph-topology summary |
| rri_default_reservoirs | Illustrative reservoir parameter template |
| rri_domain_influence | Realised influence of each domain on the composite score |
| rri_kinetics_score | Descriptive recovery speed score |
| rri_latent_correlation | Correlation with a Simulator-Defined Target |
| rri_memory_index | Persistent-displacement and loop-area diagnostic |
| rri_micro_functional_score | Construct an explicitly weighted microbial guild contrast |
| rri_o2_demand | Stoichiometric O_2 Demand from Reduced-Pool Inventories |
| rri_pipeline | Score observed soil, plant and microbial panels |
| rri_pipeline_st | Exploratory domain-score integration (legacy interface) |
| rri_property_scores | Summarise supported diagnostics without fabricating missing properties |
| rri_recovery_metrics | Descriptive recovery metrics for a single disturbance |
| rri_reference_scores | Score departures from an explicitly defined reference |
| rri_root_physio | Exploratory root-trait composite |
| rri_sensitivity | Sensitivity to domain aggregation weights |
| rri_simulation_demo | Reproducible observable-only HRRI demonstration |
| simulate_redox_holobiont | Simulate illustrative soil-plant-microbe redox trajectories |
| summary.hrri_arch | Fit a conditional capacity-recovery curve (legacy function name) |
| theme_ems | EMS plotting theme |
| validate_architecture | Fit a conditional capacity-recovery curve (legacy function name) |