Ontologies at MMI
What's This?
This page contains information about the ontologies hosted by MMI on this site.
The ontologies on this site were stored as static files on the site. Please note that MMI intends to support all its ontologies using the MMI semantic repository software at http://mmisw.org/orr, and has begun this transition. Until we have fully integrated the two sites, unfortunately you will have to look at both sites to learn about all the ontologies we have. (As soon as possible, we will upload all these files to that repository.)
If you click directly on the link to the OWL file from within your browser, you will see the ontology in its native OWL format, which uses the XML representation language. (Using Safari on a Mac, you will see a blank window. You can view the XML OWL file by selecting "View Source" from the VIew menu.) This is briefly interesting, but not the best way to view these files.
How Do I Use The Ontology Files?
Ontologies that are stored in the OWL format may be viewed and edited with many different tools. Some references are provided below and elsewhere on the MMI site.
For a quick look at the ontology file via your browser, you may use a tool such as Dumpont. To do this, copy the URL of the ontology you are interested in, then go to the Dumpont page and paste the ontology URL into the field on that form. You should see the ontology represented in your browser.
To actually work with the ontology, the application most used by MMI is Protege. We have produced some tutorials on working with this tool, including a basic introduction. To search terms and do mappings you can use VINE, the tool created at MMI.
There are many other applications which support viewing and editing OWL ontologies. You may wish to look at the references in the Tools section of this site for more options.
List of Ontologies at MMI
- aerd_ctd
- NS: http://marinemetadata.org/2005/08/aerd_ctd
- HTML view of the ontology
- aerd_underway
- NS: http://marinemetadata.org/2005/08/aerd_underway
- HTML view of the ontology
- AGU Index Terms
- NS: http://marinemetadata.org/agu
- description: AGU index Terms
- HTML view of the ontology
- AOSN - Autonomous Ocean Sampling Network Parameters
- NS: http://marinemetadata.org/2005/08/aosn-param
- description: parameters with description and units
- contributor: Mike Godin
- source: parameters from an ASCII file created by an SQL query, version June 8, 2005
- subject: parameters
- URLMoreInformation: http://mammoth.shore.mbari.org:8080/las/servlets/dataset
- HTML view of the ontology
- ARGO - Instruments
- NS: http://marinemetadata.org/2005/08/argo-inst
- description: Instrument types
- source: Manual v. 2.0.1 15/12/2003 from table 8
- subject: Instruments
- URLMoreInformation: http://www.ifremer.fr/coriolis/cdc/argo/argo-dm-user-manual.pdf
- HTML view of the ontology
- ARGO - Parameteres
- NS: http://marinemetadata.org/2005/08/argo-param
- description: Parameters and valids.
- source: Manual v. 2.0.1 Version 15/12/2003
- subject: Parameters
- URLMoreInformation: http://www.ifremer.fr/coriolis/cdc/argo/argo-dm-user-manual.pdf
- HTML view of the ontology
- Aquatic Science and Fisheries Abstracts Thesaurus (ASFA) Thesaurus
- NS: http://marinemetadata.org/2005/08/asfa
- contributor: FAO (UN Food and Agriculture Organization)
- subject: glossary terms
- URLMoreInformation: http://www.fao.org/fi/asfa/asfa.asp
- Acknowledgments: MMI thanks the FAO ASFA Secretariat and the ASFA Partners for their permission to use the ASFA Thesaurus.
HTML view of the ontology- BIOMAR classification of Marine Biotypes
- NS: http://marinemetadata.org/2005/08/biomar
- description: BioMar classification of marine biotopes by Joint Nature Conservation Committee in Britain
- contributor: Mark Costello
- source: version 2005-05-02
- subject: Habitat classification
- URLMoreInformation:
- HTML view of the ontology
- BODC Parameter- Group Dictionary
- NS: http://marinemetadata.org/2005/08/bodc-group
- description: Parameter Group codes
- contributor: BODC - British Oceonographic Data Centre - Roy Lowry
- source: version 2005-05-02
- subject: Parameters group
- URLMoreInformation: http://wwwtest.bodc.ac.uk/data/codes_and_formats/parameter_codes/
- HTML view of the ontology
- BODC Instruments
- NS: http://marinemetadata.org/2005/08/bodc-inst
- HTML view of the ontology
- BODC Parameter Markup Dictionary
- NS: http://marinemetadata.org/2005/08/bodc-param
- description: Parameter codes for using of markuping up data
- contributor: BODC - British Oceonographic Data Centre - Roy Lowry
- source: version 2005-05-02
- subject: Parameters
- URLMoreInformation: http://wwwtest.bodc.ac.uk/data/codes_and_formats/parameter_codes/
- HTML view of the ontology
- BODC UNITS
- NS: http://marinemetadata.org/2005/08/bodc-units
- description: Units codes: id, short name and long names
- contributor: BODC - British Oceonographic Data Centre - Roy Lowry
- source: version 2005-05-02
- subject: Units
- URLMoreInformation: http://wwwtest.bodc.ac.uk/data/codes_and_formats/parameter_codes/
- HTML view of the ontology
- Biological Ocean Group(BOG) CTD Bottle Fields
- NS: http://marinemetadata.org/2005/08/bog-bctd
- description: CTD bottle data (up cast), productivity, physical, and chemical data. One record for each CTD rosette bottle
- contributor: MBARI - BOG Francisco Chavez (P.I.), Tim Pennington (Project Manager), Reiko Michisaki�
- source: Version Jan 2002
- subject: fields
- URLMoreInformation: http://www.mbari.org/bog/mmug/MMUG_table.htm
- HTML view of the ontology
- Biological Ocean Group(BOG) Profiling CTD Fields
- NS: http://marinemetadata.org/2005/08/bog-pctd
- description: Profiling CTD (down cast), productivity and physical parameters (sensor data). One record for each meter in depth.
- contributor: MBARI - BOG Francisco Chavez (P.I.), Tim Pennington (Project Manager), Reiko Michisaki�
- source: Version Jan 2002
- URLMoreInformation: http://www.mbari.org/bog/mmug/MMUG_table.htm
- HTML view of the ontology
- Calco Cast
- NS: http://marinemetadata.org/2005/08/calcocast
- HTML view of the ontology
- calcofi_eggcounts
- NS: http://marinemetadata.org/2005/08/calcofi_eggcounts
- HTML view of the ontology
- calcofi_p_bot
- NS: http://marinemetadata.org/2005/08/calcofi_p_bot
- HTML view of the ontology
- calcofi_p_cast
- NS: http://marinemetadata.org/2005/08/calcofi_p_cast
- HTML view of the ontology
- calcofi_p_proto
- NS: http://marinemetadata.org/2005/08/calcofi_p_proto
- HTML view of the ontology
- calcofi_p_station
- NS: http://marinemetadata.org/2005/08/calcofi_p_station
- HTML view of the ontology
- calcofi_species_codes
- NS: http://marinemetadata.org/2005/08/calcofi_species
- HTML view of the ontology
- calcofi_station
- NS: http://marinemetadata.org/2005/08/calcofi_station
- HTML view of the ontology
- calcofi_tows
- NS: http://marinemetadata.org/2005/08/calcofi_tows
- HTML view of the ontology
- Coastal Data Information Program (CDIP)
- NS: http://marinemetadata.org/2005/08/cdip
- description: Julie Thomas
- contributor: Julie Thomas
- source: Shoreline protection manual ARMI CORPS of Eng.
- subject: Waves measurement and models
- URLMoreInformation: http://cdip.ucsd.edu
- HTML view of the ontology
- CMECS HABITAT CLASSIFICATION FRAMEWORK
- NS: http://marinemetadata.org/2005/08/cmecs
- description: Habitat classification taken from COASTAL MARINE ECOLOGICAL CLASSIFICATION STANDARD (CMECS): HABITAT CLASSIFICATION FRAMEWORK - Madden and Grossman 2004
- HTML view of the ontology
- NetCDF CF - Standard Name table
- NS: http://marinemetadata.org/2005/08/cf
An updated version can be found here: http://marinemetadata.org/cf
- description: Controlled vocabualry use in the NetCDF Climate and Forecast (CF) Metadata Convention
- contributor: Brian Eaton et. al.
- source: version 2005-08-01
- subject: Parameters
- URLMoreInformation: http://www.cgd.ucar.edu/cms/eaton/cf-metadata/standard_name.xml
- HTML view of the ontology
- CORIS - Coral Reef Information System of NOAA
- NS: http://marinemetadata.org/2005/08/coris
- description: The glossary contains terms concerned with ecology, biogeography, evolution, taxonomy, morphology, physiology, cell and molecular biology, genetics, mapping, development, fisheries, oceanography, geosciences, conservation programs, remote-sensing, physics, chemistry, and data and information management.
- contributor: Mark Costello
- source: Online glossary dowloaded 2005-08-01
- URLMoreInformation: http://coris.noaa.gov/glossary/welcome.html
- HTML view of the ontology
- NAVOCEANO's Master Oceanographic Observation Data Set (MOODS) CTD related Parameters
- NS: http://marinemetadata.org/2005/08/ctd_moods_param
- source: Version 04/21/2004
- subject: glossary terms
- URLMoreInformation: http://co-ops.nos.noaa.gov/publications/glossary2.pdf
- HTML view of the ontology
- EPIC - Pacific Marine Environmental Laboratory - Units
- NS: http://marinemetadata.org/2005/08/epic-units
- source: May 04, 2005
- URLMoreInformation: ftp://www.epic.noaa.gov/epic/epic.key
- HTML view of the ontology
- EPIC software package attributes convetion based on netDCF
- NS: http://marinemetadata.org/2005/08/epic
- description: PMEL-EPIC/CTD convention for writing netCDF data files with the EPS library,for use with the EPIC software package for oceanographic data. This document is an addendum to the PMEL-EPICdocument in the Unidata /pub/netCDF/PMEL-EPIC directory,describing those characteristics which are specific to CTD-type data.This includes CTD, XBT and bottle data.
- contributor: NOAA Pacific Marine Environmental Laboratory Seattle, WA
- source: 22 October, 1993
- subject: Attributes CTD
- URLMoreInformation: ftp://ftp.unidata.ucar.edu/pub/netcdf/Conventions/PMEL-EPIC/
- HTML view of the ontology
- The European Nature Information System (EUNIS)
- NS: http://marinemetadata.org/2005/08/eunis
- description: "The European Nature Information System (EUNIS) classification is a pan-European system, which was developed between 1996 and2001 by the European Environment Agency in collaboration with experts from throughout Europe. It covers all types of natural andartificial habitats, both aquatic and terrestrial. The National Marine Habitat Classification for Britain and Ireland was fully incorporated into the EUNIS classification system. The marine section of the EUNIS classification is currently undergoing revision through the Osloand Paris Convention (OSPAR). "
- contributor: FAO (UN Food and Agriculture Organization)
- subject: glossary terms
- URLMoreInformation: http://eunis.eea.eu.int/habitats-code-browser.jsp?habCode=A#factsheet
- HTML view of the ontology
- FNMOC - Fleet Numerical Meteorology and Oceanography Center- Interpolated Sea Level Pressure
- NS: http://marinemetadata.org/2005/08/fnmoc
- contributor: Jerome King - contact: Lynn Dewitt (ERD - Pacific Grove) NOAA/NMFS
- source: Received by email July 28 2005
- URLMoreInformation: http://www.pfeg.noaa.gov/products/las/docs/wind_from_pressure.nc.html
- HTML view of the ontology
- GCMD Instrument Keywords
- NS: http://marinemetadata.org/2005/08/gcmd-inst
- description: Instruments keywords with short name and long name
- contributor: Olsen, L.M., G. Major, S. Leicester, K. Shein, J. Scialdone, H. Weir, S. Ritz, C. Solomon, M. Holland, R. Bilodeau, T. Northcutt, R. Vogel. 2004. NASA/Global Change Master Directory (GCMD) Earth Science Keywords. Version 5.1.1
- source: version 2005-06-28 15:08:21
- subject: instruments
- URLMoreInformation: http://gcmd.nasa.gov/Resources/valids/keyword_list.html
- HTML view of the ontology
- GCMD Science Keywords
- NS: http://marinemetadata.org/2005/08/gcmd-keyw
- An updated version can be found here: http://marinemetadata.org/gcmd
- description: Science keywords categorized by: category topic term and variable
- contributor: Olsen, L.M., G. Major, S. Leicester, K. Shein, J. Scialdone, H. Weir, S. Ritz, C. Solomon, M. Holland, R. Bilodeau, T. Northcutt, R. Vogel. 2004. NASA/Global Change Master Directory (GCMD) Earth Science Keywords. Version 5.1.1
- source: version 2005-07-27 13:46:02
- subject: parameters
- URLMoreInformation: http://gcmd.nasa.gov/Resources/valids/keyword_list.html
- HTML view of the ontology
- GCMD Platform Keywords
- NS: http://marinemetadata.org/2005/08/gcmd-platf
- description: Platform keywords with short name and long name
- contributor: Olsen, L.M., G. Major, S. Leicester, K. Shein, J. Scialdone, H. Weir, S. Ritz, C. Solomon, M. Holland, R. Bilodeau, T. Northcutt, R. Vogel. 2004. NASA/Global Change Master Directory (GCMD) Earth Science Keywords. Version 5.1.1
- source: version 2005-07-26 13:46:14
- subject: Platform
- URLMoreInformation: http://gcmd.nasa.gov/Resources/valids/keyword_list.html
- HTML view of the ontology
- Sea Surface Temperature (GTS - Global Telecommunications System)
- NS: http://marinemetadata.org/2005/08/gts
- description: Sea Surface Temperature (GTS - Global Telecommunications System)
- contributor: Jerome King - contact: Lynn Dewitt (ERD - Pacific Grove) NOAA/NMFS
- source: Received by email July 28 2005
- URLMoreInformation: http://www.pfeg.noaa.gov/products/las/docs/sst.nc.html
- HTML view of the ontology
- IOC STANDARD GF3 SUBSET FOR CTD DATA
- NS: http://marinemetadata.org/2005/08/ioc-gf3
- description: Fields for data collected by a CTD or similar profiling instrument,lowered from a single location and sampling temperature, conductivity and perhaps other variables.
- contributor: Working Committee OCEANOGRAPHIC on IODE Group of Experts�
- source: Version Jun 1983
- URLMoreInformation: http://ioc.unesco.org/oceanteacher/resourcekit/M3/Formats/Integrated/GF3/ctd.pdf
- HTML view of the ontology
- IOOS - Integrated Ocean Observing System
- NS: http://marinemetadata.org/2005/08/ioos
- description: Core variables draft (not yet recommended) for the initial IOOS
- contributor: Stephanie Watson
- source: IOOS Implementation, Part II, Building the Initial IOOS, Version 8/1/2005, from Table 3 and 5
- subject: parameters
- URLMoreInformation:
- HTML view of the ontology
- Juvenile Rockfish Survey Parameters
- NS: http://marinemetadata.org/2005/08/juv-rock
- description: Paramters from Juvenile Rockfish Survey
- source: from Juvenile Rockfish Survey - Data Manager Keith Sakuma (831) 420-3945, Keith.sakuma@noaa.gov
- subject: Parameters
- URLMoreInformation:
- HTML view of the ontology
- Classifying benthic terrains with multibeam bathymetry, bathymetric position and rugosity
- NS: http://marinemetadata.org/2005/08/lunblad-05
- source: As described in Lundblad, E., Wright, D.J., Miller, J., Larkin, E.M., Rinehart, R., Battista, T., Anderson, S.M., Naar, D.F., and Donahue, B.T., Classifying benthic terrains with multibeam bathymetry, bathymetric position and rugosity: Tutuila, American Samoa, Marine Geodesy, in review, 2005,and based on Lundblad, E., The Development and Application of Benthic Classifications for Coral Reef Ecosystems Below 30 m Depth using Multibeam Bathymetry: Tutuila, American Samoa, M.S. Thesis, Corvallis, OR, Oregon State University, 137 pp.description=
- HTML view of the ontology
- Manly Hydraulics Laboratory Glossary
- NS: http://marinemetadata.org/2005/08/manly
- URLMoreInformation:
- HTML view of the ontology
- MEDS - Marine Environmetal Data Services
- NS: http://marinemetadata.org/2005/08/meds-param
- description: Parameters codes and accuracies
- source: Version 6/16/2004 12:58:27 PM online HTML page
- subject: Parameters
- URLMoreInformation: http://www.meds-sdmm.dfo-mpo.gc.ca/meds/About_MEDS/Code_Tables/standard_code_e.asp
- HTML view of the ontology
- MMI Sensors
- NS: http://marinemetadata.org/2005/08/mmi-sensors
- HTML view of the ontology
- NDBC Waves
- NS: http://marinemetadata.org/2005/08/ndbc_waves
- HTML view of the ontology
- NOAA Tide and Current Glossary
- NS: http://marinemetadata.org/2005/08/noaa-tide-current
- contributor: NOAA
- source: Version Jan 2002
- subject: glossary terms
- URLMoreInformation: http://co-ops.nos.noaa.gov/publications/glossary2.pdf
- HTML view of the ontology
- NOAA Waves terms compiled by Richard Bouchard
- NS: http://marinemetadata.org/2005/08/noaa-waves
- description: Waves glossary of NOAA with synonyms of NDBC, MEDS and others
- contributor: Richard Bouchard
- source: Richard Bouchard's Excel file v. July 28th 2005
- HTML view of the ontology
- prd_ctd
- NS: http://marinemetadata.org/2005/08/prd_ctd
- HTML view of the ontology
- PRD XBT
- NS: http://marinemetadata.org/2005/08/prd_xbt
- HTML view of the ontology
- RDI ADCP Currents and Waves Glossary
- NS: http://marinemetadata.org/2005/08/rdi
- HTML view of the ontology
- Southeast Association of Coastal Ocean Observing System (SEACOOS) Dictionary
- NS: http://marinemetadata.org/2005/08/seacoos
- description: includes standard names that are coordinate-related, time_date names, atmospheric data, physical oceanographic, chemicaloceanographic, electromagnetic radiation, ADCP, sensor-related, platform-related,M_aeri data-related, and navigation. For each name, there is a definition, shortname, long name, data type, data class, units, axis, valid range, parameter reference, instrument general, equivalent standard name, and standard.
- contributor: Jeremy Cothran
- source: Accessed 2005-08-02 11:52:00 am pacific time
- URLMoreInformation: http://marinemetadata.org/vocabularies/refs/markup/seacoosdd
- HTML view of the ontology
- SSDS Parameters
- NS: http://marinemetadata.org/2005/08/ssds-param
- description: SSDS parameters in an ontology. A CSV was generated from the database and an automatic conversion was created by MMI.
- contributor: Kevin Gomez
- source: SSDS Shore Side Data System (SSDS)
- subject: parameters
- URLMoreInformation: http://ssdspub.mbari.org/
- HTML view of the ontology
UCUM Units
NS: http://marinemetadata.org/ucum
description: The Unified Code for Units of Measure in OWL
contributor: Luis Bermudez
source: Created from an XML document version 1.6 available at http://aurora.rg.iupui.edu/UCUM/. Using
http://marinemetadata.org/ucumtoowl.xslt
subject: units
- URLMoreInformation: http://aurora.rg.iupui.edu/UCUM
- HTML view of the ontology
- U.S. GLOBEC Fields Data Thesaurus
- NS: http://marinemetadata.org/2005/08/us-globec-fields
- description: Field names used by the U.S. GLOBEC Program
- contributor: US GLOBEC
- source: Revised: July 12, 2005
- subject: paramterers
- URLMoreInformation: http://globec.whoi.edu/globec-dir/thesaurus.html
- HTML view of the ontology
- U.S. GLOBEC Instruments
- NS: http://marinemetadata.org/2005/08/us-globec-inst
- description: Instrument names used by the U.S. GLOBEC Program
- contributor: US GLOBEC
- source: Globec Thesaurus version: Revised: July 12, 2005
- URLMoreInformation: http://globec.whoi.edu/globec-dir/thesaurus.html
- HTML view of the ontology
- U.S. JGOFS Dictionary of parameters
- NS: http://marinemetadata.org/2005/08/us-jgofs
- source: version Friday, 10 September 2004 (14:53:29 EDT)
- URLMoreInformation: http://usjgofs.whoi.edu/datasys/param_master.html#Org
- HTML view of the ontology