Biogeography/ Bioinformatics Tools
Below are some tools which have been found useful by OBIS Australia partners to assist custodians of marine species data to manage, reformat, or perform quality checks on their data.
- C-squares spatial indexing - "bin" your data by 10-, 5-, 1- or 0.5- degree squares, for rapid query, retrieval, reporting, and mapping - for information see the c-squares website.
- Web mapping of point data using the c-squares mapper. The obis.org.au server now hosts the reference implemetation of the c-squares mapper, a web-accessible utility for rendering dataset spatial extents on a variety of user-selectable base maps (see the c-squares website for additional information).
- Testing for marine species data points on land
- Georeferencing (converting place names to lat-lons) - see georeferencing page
- Reverse georeferencing (converting lat-lons to nearest named place)
- Reporting on database content by geographic region, suspect lat/lon or time values, etc. - formulas page
- Reformatting hours (hours/min/sec to decimal hours after midnight, i.e. OBIS format) - see formulas page
- Parsing species scientific names against standard lists, to indicate potential additions, misspellings etc.
- "Near" (fuzzy) matching algorithm for locating misspelled species scientific names
- Both of the above can now be accessed via the IRMNG project workspace.
For additional information on any of the above tools, contact Tony.Rees@csiro.au at this time.
This page is intended to be a dynamic community resource; if you have knowledge of additional tools that you would like to share with the Australian marine species community, please contact the node manager.
Last modified 14-05-2009