cetmap atlantic update
DESCRIPTION
Ben Best, Jason Roberts, Pat Halpin. Cetmap Atlantic update. Nov 2011 Draft Report (550 p). Since then…. More datasets Standardize dataset ingestion Enhanced environmental predictors Mix platforms Segment transects Spatial models for Encounters & Group Size - PowerPoint PPT PresentationTRANSCRIPT
CETMAP ATLANTIC UPDATE
Ben Best, Jason Roberts, Pat Halpin
Nov 2011 Draft Report (550 p)
Since then… More datasets Standardize dataset ingestion Enhanced environmental predictors Mix platforms Segment transects Spatial models for Encounters & Group
Size Subset for model validation and
performance R scripts to Python tools
Added datasets
Updated Atlantic datasets
2006 - 2009
Static Predictors
Dynamic Predictors
Dynamic Predictors (cont’d)Polarity
Mixing Platforms
ship
aircraft
env
Credit: NODES report illustrations
Mixing Platforms
Segmentation
Segmentation
Segmentation (cont’d)Spanning (10 km, 1 hr)
Non-spanning5 km
10 km
25 km
50 km
100 km
150 km
250 km
Data Dashboard
Det formulas – AIC, GoF, ChiSqN obs by
platform, region
N obs vs seg length(limited by spp, region, platform)
Det prob vs distance - ESW
Fit data specification
Model Input Dataregions taxon platforms segmentations detfxns model_id
GM Balaenoptera edeni boat 200 GM_hn-cds Bal_ede_GM_01
GM Feresa attenuata boat 200 GM_hn-cds Fer_att_GM_01
GM Globicephala spp. boat 200 hr-beaufort Glo_spp_GM_01
GM Kogia spp. boat 200 hr-beaufort Kog_spp_GM_01
GM Mesoplodon spp. boat 200 hr-beaufort Mes_spp_GM_01
GM Peponocephala electra boat 200 GM_hn-cds Pep_ele_GM_01
GM Physeter macrocephalus boat 25 GM_hn-cds Phy_mac_GM_01
GM Pseudorca crassidens boat 200 GM_hn-cds Pse_cra_GM_01
GM Stenella attenuata boat 25 GM_hr-cds Ste_att_GM_01
GM Stenella clymene boat 200 GM_hn-beaufort Ste_cly_GM_01
GM Stenella clymene/longirostris boat 200 GM_hn-beaufort Ste_clylon_GM_01
GM Stenella coeruleoalba boat 200 hn-beaufort Ste_coe_GM_01
GM Stenella longirostris boat 200 GM_hr-beaufort Ste_lon_GM_01
GM Steno bredanensis boat 200 GM_hr-beaufort Ste_br_GM_01
GM Ziphius cavirostris boat 200 hn-beaufort Zip_cav_GM_01
GM;GM Grampus griseus boat;plane 100;200 hr-beaufort;hr-cds Gra_gri_GM_01
GM;GM Stenella attenuata/frontalis boat;plane 10;200 hr-beaufort;hn-beaufort Ste_attfro_GM_01
GM;GM Stenella frontalis boat;plane 200;200 hr-beaufort;hr-beaufort Ste_fro_GM_01
GM;GM Tursiops truncatus boat;plane 25;5 hr-beaufort;hr-beaufort Tur_tru_GM_01
NE Balaenoptera borealis plane 200 NE_hn-cds Bal_bor_NE_01
NE Lagenorhynchus albirostris plane 200 NE_hn-cds Lag_alb_NE_01
NE Stenella coeruleoalba boat 25 hn-beaufort Ste_coe_NE_01
NE Ziphius cavirostris boat 50 hr-cds Zip_cav_NE_01
Model Formulas – 180 variations 10000s digit - region
1000 - GM
1000s digit - season
1000 - All year 2000 - GM winter: DayOfYear >= 18 AND DayOfYear <= 73 3000 - GM spring-fall: DayOfYear >= 106 AND DayOfYear <= 275
100s digit - env/space/time combination
Encounter rate:
100 - env + space + time 200 - env + te(space, time, bs='ts', k=10) 300 - env + space 400 - env + time 500 – env
10s digit - smoothing controls
10 - REML 20 - GCV.Cp, gamma=1.6 30 - GCV.Cp, gamma=1.0, k=5 per predictor 40 - GCV.Cp, gammma=1.6, bs=ts, k=3 50 - GCV.Cp, gammma=1.6, bs=ts, k=4 60 - GCV.Cp, gammma=1.6, bs=ts, k=5 70 - GCV.Cp, gammma=1.6, bs=cs, k=3 80 - GCV.Cp, gammma=1.6, bs=cs, k=4 90 - GCV.Cp, gammma=1.6, bs=cs, k=5
1s digit - customized tweak
0 - base model with no tweaks
Prediction Grid
Observations – Test vs Train Sperm whale
Explore Data
Fit Model
Predict Density: Sperm whale - Jul
Encounter Rate
Group Size
X
Sperm whale density - Apr
Sperm whale density - May
Sperm whale density - Jun
Sperm whale density - Jul
Sperm whale density - Aug
Sperm whale density - Sep
Tools for Workflows
Roberts JJ, BD Best, DC Dunn, EA Treml, PN Halpin (2010) Marine Geospatial Ecology Tools: An integrated framework for ecological geoprocessing with ArcGIS, Python, R, MATLAB, and C++. Environmental Modelling & Software.
Next Steps Run predictions on rest of species for GoMex Ingest 2 recent sets of data (NARWSS,
UNCW) Run predictions on Atlantic species Variance estimation Rare species modeling approaches (BRT,
RandomForests, ZIP Bayes, Maxent…) Generate static report Elicit expert review Validation and sensitivity (segmentations /
platform / prediction avg) Populate CetMap / SEAMAP / MarineCadastre
Thank youComments or questions?
Maxent for Density? Allocate density through
Maxent suitability surface (VanDerWal et al 2009; Oliver et al 2012; Jiménez-Valverde 2011) a la RES
or Maxent(occ) * f(GS) = Density
Variability through bootstrapjava -jar maxent.jar -X 25 replicates=100 100 runs, 75% randomly chosen presence records mean, standard deviation and lower confidence limits per
pixel
Variable Importance
Interrogate Pixel