using desktop data in kepler dan higgins – nceas prepared for: ecoinformatics training for...
TRANSCRIPT
![Page 1: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/1.jpg)
Using Desktop Data in KeplerDan Higgins – NCEAS
Prepared for:
Ecoinformatics Training for Ecologists
LTER (Albuquerque)
January 8-12, 2007
http://www.kepler-project.org
http://seek.ecoinformatics.org
![Page 2: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/2.jpg)
Viewing a Dataset – Text Editor1999 Sevilleta LTER NPP Quadrat Sampling Data
Text Editor view ofdata from a web page
Includes both data anddocumentation (metadata)In a single text document
727 KB file
![Page 3: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/3.jpg)
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 KBSevilletaData.csv – 369 KBSevilletaData.txt – 369 KBSevilletaData.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)
![Page 4: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/4.jpg)
Viewing a Dataset – Morpho1999 Sevilleta LTER NPP Quadrat Sampling Data
Morpho view
Shows data and emlmetadata
![Page 5: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/5.jpg)
Viewing a Dataset – Kepler1999 Sevilleta LTER NPP Quadrat Sampling Data
Kepler view(using KNB MetacatEcogrid query)
Can view formattedEML metadata
Default configurationshows a port foreach column in thedata table
![Page 6: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/6.jpg)
Viewing a Dataset – Kepler1999 Sevilleta LTER NPP Quadrat Sampling Data
Kepler view(using KNB MetacatEcogrid query)
Data source actor canbe configured to displaythe data by running asimple workflow.
![Page 7: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/7.jpg)
Viewing a Dataset - Kepler
Kepler view(using local EML2 Dataset actor)
Depends on properformat of link fromMetadata (eml) tothe local data file(not yet workingwith local Morphofiles)
![Page 8: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/8.jpg)
Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data
Kepler view(using the R-basedReadTable actor)
Read local file andprovide metadatasuch as separator,file name, headerpresence, etc.
![Page 9: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/9.jpg)
Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data
Kepler view(using the R-basedReadTable actor)
Result of executingworkflow
![Page 10: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/10.jpg)
Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data
Kepler view(using the R-basedReadTable actor)
Text display from theReadTable actorafter adding ‘dim(df)’and ‘summary(df)’ commands
Row and Column count
Data Summary
![Page 11: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/11.jpg)
Kepler – ReadTable Actor1999 Sevilleta LTER NPP Quadrat Sampling Data
Kepler view(using the R-basedReadTable actor)
Result of creating aBoxPlot of data inthe 9th column (the‘height’ column)
![Page 12: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/12.jpg)
Kepler – ReadTable Actor
Kepler view(using the R-basedReadTable actor)
Dataframe createdby the ReadTableactor can be passedTo another actorfor further processing
![Page 13: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/13.jpg)
Kepler – ReadTable Actor
Kepler view(using the R-basedReadTable actor)
Result of furtherdataframe processing:
Species vs countBoxPlots
![Page 14: Using Desktop Data in Kepler Dan Higgins – NCEAS Prepared for: Ecoinformatics Training for Ecologists LTER (Albuquerque) January 8-12, 2007](https://reader036.vdocuments.us/reader036/viewer/2022062803/56649f2e5503460f94c48136/html5/thumbnails/14.jpg)
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