BiodiversityWorld GRID Workshop

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Units in the BDWorld toolbox
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Toolbox arrangement

• Data sources
• Data processors
• Converter units
• Input units
• Output units

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Data Sources

• Collecting data is an important part of any
  workflow
• BDWorld can fetch Locality data from many remote
  databases
• Including

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• GBIF provide a single portal to well over 100
  biodiversity data providers (69M records)
• BDWorld collects locality data from GBIF based on
  species names

Source http//www.gbif.org June 2005
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Simple workflow to fetch all GBIF localities for
a list of names
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Thematic Data

• Thematic layers database
• Past, present and future climate data
• Potentially could hold any GIS thematic data

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Pollen Data

• A BDWorld development
• Putting regional pollen databases into a single
  searchable DB
• Creating a BDWorld tool to access this DB

Pollen DB localities
BDWorld built web-interface
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Data Processors

• Bioclimatic modelling
• Systematics
• Biodiversity
• Taxonomy
• Utilities

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Bioclimatic Modelling from openModeller

• openModeller provides access to many modelling
  algorithms
• Including GARP, CSM and BIOCLIM

http//openmodeller.sourceforge.net/
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openModeller in BDWorld

• No GUI in BDWorld
• Easy to repeat same analysis for many species
• Uses BDWorld server
• Access to many climate layers

openModeller workflow in BDWorld
Nice output here please
Output in BDWorld
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Systematics and Biodiversity

• There are many free open-source command-line
  utilities
• We have made a start with MrBayes, r8s
• Also some legacy software we should have
• Fetch sequence data from EMBL
• Wrapping some WorldMap algorithms

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Species 2000

• Taxonomic verification
• Synonym checking
• c. 500,000 species
• Plants, fungi, animals insects

Source http//www.sp2000.org June 2005
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Example workflow

• Input a name
• Output the verified taxon

Genus NameLeucaena Species Name leucocephala
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Plugging them all together
SP2000
openModeller
GBIF
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Helper Tools

• Input units
• Combo boxes
• Taxon generator
• File reader
• Output units
• File saver
• Converter units

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Summary

• Currently 49 tools
• 34 in house tools
• 8 open source
• 7 legacy tools
• Many more to come!