Package index

Data, preprocessing and design

som_data()

Construct a design-explicit SOM data object

som_preprocess()

Define leakage-safe SOM preprocessing

som_resamples()

Construct design-aware resamples

som_spec()

Specify a reproducible SOM ensemble

expand_som_spec()

Expand an ensemble specification into its model budget

Ensembles and representation

fit_som_ensemble()

Fit a reproducible ensemble of self-organizing maps

audit_som()

Audit representation quality across a SOM ensemble

audit_som_representation()

Audit reproducibility of continuous SOM representations

plot_som_plane()

Plot an interpretable plane from one SOM ensemble member

pareto_candidates()

Identify Pareto-efficient SOM candidates

Partitions and consensus

partition_som()

Form and compare candidate hard partitions of SOM units

consensus_som()

Construct a sample-level consensus partition

som_gate()

Define explicit evidence gates for a hard SOM partition

assess_defensibility()

Assess partition defensibility without forcing a verdict

Triangulation and transfer

fit_cross_models()

Fit controlled cross-model reference partitions

compare_cross_models()

Compare SOM partitions with controlled cross-model references

audit_transfer()

Audit transfer to held-out sampling domains

map_som_ensemble()

Map new observations through a fitted SOM ensemble

evaluate_external_labels()

Compare a consensus partition with external ecological labels

Diagnostic plot methods

plot(<som_audit>)

Plot SOM audit trade-offs

plot(<som_partitions>)

Plot partition reproducibility across candidate class counts

plot(<som_consensus>)

Plot sample-level consensus evidence

plot(<som_cross_comparison>)

Plot cross-model agreement without ranking methods

plot(<som_transfer_audit>)

Plot mapping shift in held-out domains

plot(<som_newdata_mapping>)

Plot new-data mapping shift across an ensemble

plot(<som_sensitivity>)

Plot sample-level sensitivity across prespecified scenarios

Complete workflows

run_som_workflow()

Run a complete SOM defensibility workflow

summary(<som_workflow>)

Summarize workflow quality assurance and model outcomes

run_som_sensitivity()

Run prespecified SOM sensitivity scenarios

upgrade_som_object()

Upgrade a persisted SOMevidence object contract

Teaching, examples and interface

simulate_som_scenario()

Simulate known-structure data for SOM validation

open_data_registry()

List governed tutorial and candidate open-data sources

launch_som_app()

Launch the optional reproducible SOM interface