NEWS

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oystermapR 1.0.0

Initial CRAN release.

Core prediction pipeline

• predict_oyster() — AHP-weighted suitability scoring from tabular sensor data, with automatic column name matching, season detection, hard exclusion checks, and optional GeoTIFF + contour export for QGIS.
• check_exclusions() / score_locations() — modular exclusion and scoring steps for programmatic use.
• export_geotiff() / export_qml_style() — raster and QGIS colour-ramp export.

Species supported

Ostrea edulis, Magallana gigas, Crassostrea angulata, Ostrea stentina, Ostrea lurida. See list_species().

Sensor ingest

• read_nortek_adcp() — Nortek Signature 500 ADCP CSV parser.
• read_sonar_tif() — Ping 3DSS / BioBase bathymetric raster reader.
• merge_sensor_data() / ingest_sensors() — spatial merge of multi-sensor datasets.

Validation and diagnostics

• validate_against_records() — AUC, TSS, Brier score, F1, sensitivity/specificity vs known presence/absence records.
• spatial_block_cv() — spatial block cross-validation (Roberts et al. 2017).
• permutation_importance() — variable importance by AUC drop.
• sensitivity_analysis() — partial dependence curves.

Bayesian tolerance updating

• update_species_tolerances() — MAP + Laplace or RWMH MCMC updating of optimal-range parameters from field observations.
• get_tolerance_posteriors(), save_tolerance_update(), load_tolerance_update(), reset_tolerance_update().

Risk and disturbance modules

• score_predation_risk(), score_hab_risk(), score_anthropogenic_disturbance(), score_wave_exposure(), score_sediment_stability(), add_shellfish_classification().

Larval connectivity

• score_larval_connectivity() — hybrid union-find Gaussian kernel + optional OpenDrift/FVCOM connectivity matrix scoring.
• parse_opendrift_connectivity() — converts OpenDrift CSV output to connectivity matrix format.

Multi-species and seasonal comparison

• compare_species(), compare_surveys(), composite_seasonal().