Growth dynamics of bottlenose dolphins (Tursiops truncatus) at the southern extreme of their range
DOI10.5281/zenodo.14563512Zenodo14563512MaRDI QIDQ6705487FDOQ6705487
Dataset published at Zenodo repository.
Leah Crowe, Stephen Dawson, William Rayment, Matthew R. Schofield
Publication date: 27 December 2024
Copyright license: Creative Commons Attribution 4.0 International
Version release associated with GitHub repository: https://github.com/leahcrowe-otago/FBD_measurements/tree/main Workflow: Identify when in video dolphin surfaces, ID that dolphin Screen grab the best image of the dolphin above that shows rostrum to tail at/near the surface used VLC player to go frame by frame Add screen grab filename to the time and ID from #1 Run "./scripts/Altitudes for snapshots" for each day of droning this adds a check to make sure GPS of the LiDAR and the metadata from the drone match up finds altitude for each snapshot matches up to IDs and outputs file to enter measurements identifies if altimeter reading meets criteria per Dickson et al. 2020 ("issues" column) Populate the "altperimage_*" file with measurements (.csvs fromWhalelengthare later merged in "./scripts/whalength_file_merge.R") filter by issue == "N" hide columns C, G, H, and J to AC Run each resulting image through Whalength I1P Video stills, -1.5 cm offset Run "measurements_demo.Rmd" to wrangle data, incorporate life history info ("demo"graphy data), and create some supplementary figures calls "whalength_file_merge.R" merges allWhalelengthoutputs creates Fig. S4, calibration measurements Supplementary Figures S5 data output: see data repo for metadata details individualimeasurement data at each capture occasionjfor model individual life history data Model run in the "./scripts/stan/runstan_allo_mv_t0.R" file: 'run' the 'stan' code of 'allo'metric measurement data in a 'm'ulti'v'ariate model with fixed age at length zero (t0) data formatting for model calls the Stan model main model: "./scripts/stan/vb_mod_all0_t0.stan" for the supplementary sex/pod effect model: "./scripts/stan/sex_pod_effects.R" runs the model specified in "./scripts/stan/vb_mod_all0_t0_sexpod.stan" initial values for von Bertalanffy model (init_vb) fit the model (fit_vb) save results "./scripts/Results.R" read data summarise results create table S2 create Figs. 24, S6, S7 "Supplementary.qmd" creates the suppmat file creates supplementary tables Section 1.3 created from './scripts/Results_age_adjusted.R' Fig. S1 map created by calling "./scripts/ms_map.R" Data: "./data/Measurements/Data for review" Metadata-description.pdf: describes the data in the following files: ij_1.csv ij_2.csv ij_3.csv ij_ID.csv
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