Titschack, Jürgen; Schmitt, Kira; Baum, Daniel; Wienberg, Claudia; Timann, Christian; Lemke, Arne-Jörn: Directed edges of the colony skeleton graph from Madrepora colony sample GeoB12747-1 [dataset]. PANGAEA, https://doi.pangaea.de/10.1594/PANGAEA.969550 (dataset in review), In: Titschack, Jürgen; Schmitt, Kira; Baum, Daniel; Büscher, Janina; Form, Armin; Tracey, Di; Mills, Sadie; Wienberg, Claudia; Timann, Christian; Lemke, Arne-Jörn: CT-based calices segmentation (in DICOM format) of cold-water coral colony samples and spreadsheet containing the directed edges of the colony skeleton graph [dataset bundled publication]. PANGAEA, https://doi.pangaea.de/10.1594/PANGAEA.969578 (dataset in review)
Abstract:
Madrepora oculata sample GeoB12747-1 originates from Meknes mud vulcano, Gulf of Cadiz, where it was taken with the Marum ROV CHEROKEE during Pelagia cruise 64PE284 (position: 34,9883°N, 7.072°W, 714 water depth). The coral colony fragment was scanned by a Toshiba Aquilion 64 computer tomograph (CT) at the hospital Klinikum Bremen-Mitte with an x-ray source voltage of 120 kV and a current of 600 mA. The CT image stack has a resolution of 0.35 mm in x-direction and y-direction and 0.5 mm resolution in z-direction (0.3 mm reconstruction unit). Images were reconstructed using Toshiba's patented helical cone beam reconstruction technique (TCOT) and are provided in DICOM-format.
The dataset contains a spreadsheet containing the (directed) edges of the colony skeleton graph. Each label in calices.dcm represents a vertex in this graph. The edges are given by their start label Node ID #1 and the label of their target Node ID #2.
Related to:
Schmitt, Kira; Titschack, Jürgen; Baum, Daniel (preprint): CoDA: Interactive Segmentation and Morphological Analysis of Dendroid Structures Exemplified on Stony Cold-Water Corals. arXiv, https://doi.org/10.48550/ARXIV.2406.18236
Further details:
Titschack, Jürgen; Schmitt, Kira; Baum, Daniel; Wienberg, Claudia; Timann, Christian; Lemke, Arne-Jörn: CT raw data, polyp-cavity segmentation and calices segmentation (all DICOM format) of Madrepora colony sample GeoB12747-1 [dataset]. PANGAEA, https://doi.pangaea.de/10.1594/PANGAEA.969565
Funding:
German Research Foundation (DFG), grant/award no. Ba5042/6-1; Ti706/6-1; project 490665120: CTcoral – CyberTaxonomische Klassifizierung und morphologische Charakterisierung von Kaltwasserkorallen
Coverage:
Median Latitude: 34.984500 * Median Longitude: -7.072667 * South-bound Latitude: 34.980667 * West-bound Longitude: -7.073333 * North-bound Latitude: 34.988333 * East-bound Longitude: -7.072000
Date/Time Start: 2008-03-01T11:30:00 * Date/Time End: 2008-03-01T13:57:00
Minimum Elevation: -732.0 m * Maximum Elevation: -714.0 m
Event(s):
GeoB12747-1 * Latitude Start: 34.988333 * Longitude Start: -7.072000 * Latitude End: 34.980667 * Longitude End: -7.073333 * Date/Time Start: 2008-03-01T11:30:00 * Date/Time End: 2008-03-01T13:57:00 * Elevation Start: -714.0 m * Elevation End: -732.0 m * Location: Meknes mud volcano * Campaign: 64PE284 (58735) * Basis: Pelagia * Method/Device: Remote operated vehicle (ROV) * Comment: line 1: N->S, deployment of TRACS, sample #01: Lophelia framework & carbonate
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Edge, start | Edge start | Titschack, Jürgen | Coral Dendroid structure Analyzer (CoDA) | Node ID #1 | |
| 2 | Edge, target | Edge target | Titschack, Jürgen | Coral Dendroid structure Analyzer (CoDA) | Node ID #2 |
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0) (License comes into effect after moratorium ends)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
130 data points