Biological Oceanography

"Metadata for Ocean Scientists" Tutorial at Ocean Sciences 2008

swatson — Tue, 15 Jan 2008 10:54:00 -0800

Event Description

MMI proposes to hold free metadata tutorials that are divided into 30-minute modules at the Ocean Sciences 2008 meeting. The modules will be: Introduction to Metadata; Introduction to Controlled Vocabularies, Taxonomies and Ontologies; Submitting Metadata to a Clearinghouse; and Metadata Best Practices. Two modules will be held during each lunch break on Tuesday and Wednesday. All four modules will be provided on Thursday evening.

Workshops Team

BioGeomancer

kwalz — Thu, 17 Jul 2008 13:25:02 -0700

From website:

"The BioGeomancer Project is a worldwide collaboration of natural history and geospatial data experts. The primary goal of the project is to maximize the quality and quantity of biodiversity data that can be mapped in support of scientific research, planning, conservation, and management. The project promotes discussion, manages geospatial data and data standards, and develops software tools in support of this mission."

BOG CTD Bottle Data Field Names

kwalz — Sun, 10 Feb 2008 17:55:00 -0800

Monterey Bay Aquarium Research Institute's Biological Ocean Group CTD bottle data (up cast), productivity, physical, and chemical data field names.

BOG CTD Profiling Data Field Names

kwalz — Sun, 10 Feb 2008 17:55:00 -0800

List of field names used for the profiling CTD data set type at MBARI.

Describes Monterey Bay Aquarium Research Institute's Biological Ocean Group samples from the Profiling CTD (down cast), productivity and physical parameters (sensor data). One record for each meter in depth.

COBrA

kwalz — Thu, 31 Jan 2008 05:50:00 -0800

COBrA allows the user to manually create links between terms in two ontologies. For example, links between tissues in an anatomy and the cell types of the tissues can be recorded and stored: these links are referred to as mappings.

Has the following features:

MESH: Mapping European Seabed Habitats

graybeal — Fri, 11 Jan 2008 23:22:00 -0800

The MESH program goal is to develop international standards and protocols for seabed mapping studies. The end products will include a meta database of mapping studies, and guidance for marine habitat mapping including protocols and standards.

In the basic search page, there is a list of pointers to different habitat mapping vocabularies.

NOAA's Coral Reef Information System (CoRIS)

haiying — Tue, 04 Dec 2007 16:03:00 -0800

NOAA's Coral Reef Information System (CoRIS) is designed to be a single point of access to NOAA coral reef information and data products, especially those derived from NOAA's Coral Reef Conservation Program.

Includes a glossary, references, etc.
Metadata examples for different data types:

Aerial Photography (pdf, 104 kb)

NODC Codes for Biological Observations

kwalz — Fri, 11 Jan 2008 17:02:00 -0800

This National Oceanographic Data Center (NODC) document, dated 93/06/04, contains codes in many different domains associated with biological observations. Codes are 1, 2, or 3 characters.

Domains include:

NODC World Ocean Database Country Codes

kwalz — Mon, 17 Dec 2007 06:18:00 -0800

National Oceanographic Data Center (NODC) World Ocean Database 2005 contains country codes that are numbers to 99 followed by 2-letter codes. WOD omits many countries that are landlocked. Informal.

OBIS Schema

kstocks — Wed, 28 Nov 2007 07:03:00 -0800

The OBIS schema is the content standard used by OBIS, the Ocean Biogeographic Information System. It represents an extension of the Darwin Core Version 2. It is designed for marine biodiversity data, specifically to record the capture or observation of a particular species or other taxonomic group at a particular location. It can also be applied to museum specimen data.

OBO: Open Biological Ontologies

graybeal — Fri, 11 Jan 2008 21:45:00 -0800

From the site: "This site contains ontologies and points to some other efforts within the community. Ideally we see a range of ontologies being designed for biological domains. Some of these will be generic and apply across all organisms and others will be more restricted in scope, for example to specific taxonomic groups."

The site is not simply a compendium of ontologies. It has inclusion criteria which are fairly strict, in order to facilitate interoperation of the multiple ontologies listed.

uBio

ngalbraith — Tue, 27 Nov 2007 13:10:00 -0800

http://www.ubio.org/index.php