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Using Desktop Data in Kepler

Using Desktop Data in Kepler. Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007 http://www.kepler-project.org http://seek.ecoinformatics.org. Viewing a Dataset – Text Editor 1999 Sevilleta LTER NPP Quadrat Sampling Data.

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Using Desktop Data in Kepler

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  1. Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007 http://www.kepler-project.org http://seek.ecoinformatics.org

  2. Viewing a Dataset – Text Editor1999 Sevilleta LTER NPP Quadrat Sampling Data Text Editor view of data from a web page Includes both data and documentation (metadata) In a single text document 727 KB file

  3. Viewing a Dataset - Excel 1999 Sevilleta LTER NPP Quadrat Sampling Data Excel View Data and column header only Can be saved in various formats SevilletaData.xls – 1489 KB SevilletaData.csv – 369 KB SevilletaData.txt – 369 KB SevilletaData.xlm – 5863 KB Only some formats are easily readable by other applications! *.csv - comma separated values ; *.txt - tab separated values (Cutting & Pasting from Excel results in tab separated columns)

  4. Viewing a Dataset – Morpho1999 Sevilleta LTER NPP Quadrat Sampling Data Morpho view Shows data and eml metadata

  5. Viewing a Dataset – Kepler1999 Sevilleta LTER NPP Quadrat Sampling Data Kepler view (using KNB Metacat Ecogrid query) Can view formatted EML metadata Default configuration shows a port for each column in the data table

  6. Viewing a Dataset – Kepler1999 Sevilleta LTER NPP Quadrat Sampling Data Kepler view (using KNB Metacat Ecogrid query) Data source actor can be configured to display the data by running a simple workflow.

  7. Viewing a Dataset - Kepler Kepler view (using local EML2 Dataset actor) Depends on proper format of link from Metadata (eml) to the local data file (not yet working with local Morpho files)

  8. Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data Kepler view (using the R-based ReadTable actor) Read local file and provide metadata such as separator, file name, header presence, etc.

  9. Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data Kepler view (using the R-based ReadTable actor) Result of executing workflow

  10. Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data Kepler view (using the R-based ReadTable actor) Text display from the ReadTable actor after adding ‘dim(df)’ and ‘summary(df)’ commands Row and Column count Data Summary

  11. Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data Kepler view (using the R-based ReadTable actor) Result of creating a BoxPlot of data in the 9th column (the ‘height’ column)

  12. Kepler – ReadTable Actor Kepler view (using the R-based ReadTable actor) Dataframe created by the ReadTable actor can be passed To another actor for further processing

  13. Kepler – ReadTable Actor Kepler view (using the R-based ReadTable actor) Result of further dataframe processing: Species vs count BoxPlots

  14. Acknowledgements • This material is based upon work supported by: • The National Science Foundation under Grant Numbers 9980154, 9904777, 0131178, 9905838, 0129792, and 0225676. • Collaborators: NCEAS (UC Santa Barbara), University of New Mexico (Long Term Ecological Research Network Office), San Diego Supercomputer Center, University of Kansas (Center for Biodiversity Research), University of Vermont, University of North Carolina, Napier University, Arizona State University, UC Davis • The National Center for Ecological Analysis and Synthesis, a Center funded by NSF (Grant Number 0072909), the University of California, and the UC Santa Barbara campus. • The Andrew W. Mellon Foundation. • Kepler contributors: SEEK, Ptolemy II, SDM/SciDAC, GEON

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