Data from: Consensus forecasting of intertidal seagrass habitat in the Wadden Sea

Folmer EO, van Beusekom JEE, Dolch T, Gräwe U, van Katwijk MM, Kolbe K, Philippart CJM

Date Published: August 10, 2016

DOI: http://dx.doi.org/10.5061/dryad.q9c54.2

 

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Title distance to land (geotif, epsg:3035)
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Description used for imputing sediment
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Title mean exposure time (geotif, epsg:3035)
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Description Exposure time of the intertidal flats: mean fraction of time (between 0 and 1) that the seafloor is exposed to air.
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Title intertidal regions (geotif, epsg:3035)
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Description Intertidal regions in the Wadden Sea: 1. Denmark; 2. Schleswig-Holstein; 3. Lower Saxony; 4. Netherlands
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Title seagrass occupation (geotif, epsg:3035)
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Description Proportion of the 17 years that a cell was occupied. These data cover Schleswig-Holstein.
Download sg.prop.tif (871.3 Kb)
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Title bottom shear stress (geotif, epsg:3035)
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Description mean bottom shear stress due to currents
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Title bottom shear stress Q75 (geotif, epsg:3035)
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Description 75th percentile of bottom shear stress due to currents
Download taub.Q75.tif (2.110 Mb)
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Title slope of seaflooor (geotif, epsg:3035)
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Download slope.tif (2.134 Mb)
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Title tidal basins (geotif, epsg:3035)
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Description 39 tidal basin of the Wadden Sea. They are used to split the Schleswig-Holstein training area data for spatial cross-validation.
Download TB.tif (1.006 Mb)
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Title func_seagrass R script with libraries and helper functions
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Download func_seagrass.R (514 bytes)
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Title 1_impute: R script for imputation of sediment data
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Download 1_impute.R (1.198 Kb)
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Title 2_prepare: R-script spatial subsetting and transformation
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Download 2_prepare.R (1.015 Kb)
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Title 3_train: R-script model training
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Description This script trains the ML algorithms on the basis of spatial and random cross-validation. It applies the caret machinery.
Download 3_train.R (4.128 Kb)
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Title 4_gop: R-script for computing goodness of prediction
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Description Goodness of Prediction is computed for all models based on random and spatial cross-validation. The gop of the consensus model is also computed. The script outputs the predictions of the best (lowest RMSE) models and latex tables.
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Title 5_ensemble: R-script for constructing the ensemble of predictions
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Download 5_ensemble.R (2.556 Kb)
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Title 6_consensus: R script to produce the consensus predictions
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Description This script produces the consensus predictions (weighted average and weighted prediction variance) on the basis of the ensemble of predictions. It also adds the presence only data.
Download 6_consensus.R (2.035 Kb)
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Title 7_Boyce: R script for validation with presence-only data
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Description Area-adjusted frequency of the presence of seagrass (“continuous Boyce index”) vs HSS (habitat suitability score) on the basis of a rolling mean.
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Title Presence only shapefile
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Description A shapefile (epsg:3035) with observations/occurrences of seagrass. It is presence-only because absences are not systematically scored.
Download shapefile_presence_only.zip (97.67 Kb)
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Title sessionInfo
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Description The output of the R-function sessionInfo() which shows the used versions of R and packages.
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Title Consensus habitat suitability scores (geotif; epsg:3035)
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Description Consensus habitat suitability scores for littoral seagrass habitat in the Wadden Sea.
Download WaddenSea_littoral_seagrass_habitat_conse...re.tif (1.993 Mb)
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Title Spread in the habitat suitability scores (geotif; epsg:3035)
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Description Spread in the habitat suitability scores for littoral seagrass habitat in the Wadden Sea.
Download WaddenSea_littoral_seagrass_habitat_ensem...ad.tif (2.113 Mb)
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Title Reclassified habitat suitability scores (geotif; epsg:3035)
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Description Reclassification (3 classes) of the consensus suitability scores for littoral seagrass habitat in the Wadden Sea.
Download WaddenSea_littoral_seagrass_habitat_3classes.tif (881.7 Kb)
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When using this data, please cite the original publication:

Folmer EO, van Beusekom JE, Dolch T, Gräwe U, van Katwijk M, Kolbe K, Philippart CJ (2016) Consensus forecasting of intertidal seagrass habitat in the Wadden Sea. Journal of Applied Ecology 53(6): 1800–1813. http://dx.doi.org/10.1111/1365-2664.12681

Additionally, please cite the Dryad data package:

Folmer EO, van Beusekom JEE, Dolch T, Gräwe U, van Katwijk MM, Kolbe K, Philippart CJM (2016) Data from: Consensus forecasting of intertidal seagrass habitat in the Wadden Sea. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.q9c54.2
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