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Using Open Source GIS to Analyze Public Health Data

Considering presenting atURISA's GIS in Public Health ConferencePutting Health in Place with GISJune 5-8, 2009 - Providence, Rhode Island. Outline Presentation. Introduce CapstoneIntroduce Open SourceDescribe DatasetsDescribe AnalyzesOpen Source Applications Re-visited. Capstone Objective. E

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Using Open Source GIS to Analyze Public Health Data

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    1. Using Open Source GIS to Analyze Public Health Data Geog 596a Capstone Proposal Peer Review Advisor: Frank Hardisty Penn State MGIS July 2008

    2. Considering presenting at URISA’s GIS in Public Health Conference Putting Health in Place with GIS June 5-8, 2009 - Providence, Rhode Island

    3. Outline Presentation Introduce Capstone Introduce Open Source Describe Datasets Describe Analyzes Open Source Applications Re-visited

    4. Capstone Objective

    5. Open Source Better quality, higher reliability, more flexibility, lower cost, and an end to predatory vendor lock-in Must comply with 10 criteria for example Free redistribution Open access to the source code License must be technology-neutral

    6. Significance of Open Source Leading edge of technology Always has been Becoming part of mainstream computing Where propriety software often gets its ideas and base code Runs on older and newer computers Large learning curve Community Supported Ask the right question ? Get help ie: show that you tried to fix the problem, not just ask for help The “tweak factor” A lot of times it does not work out of the box Once configured, it just works, and works, and…

    7. Open Source

    8. Open Source Applications Linux (Ubuntu) - operating system GRASS GIS - spatial analysis, desktop display; plug-in for R-Spatial R-Spatial - statistical package PostGIS – spatially enabled database QGIS – desktop display; plug-in for GRASS OpenLayers - web map interface MapServer – GIS server; web map interface

    9. Asthma Dataset From the UNMCare program at the University of New Mexico Hospital. UNMCare is a healthcare coverage program for low-income families in Bernalillo County, NM. Data provided by the New Mexico Department of Health and the UNM Health Sciences Center.

    10. Attributes of UNMCare Dataset Medical Record Number (Unique ID) Street level address (de-identified down to a census block to satisfy HIPPA) Primary, secondary, and tertiary diagnostics (ICD-9 Codes) Visit type (inpatient, outpatient) Race, gender, and age Visit start and end date Cost to health care system

    11. US Census Data Tract Housing type cost, own/rent Block Group Age Race Gender Employment Income Block Population GIS data clearinghouse for New Mexico http://rgis.unm.edu/data_entry.cfm

    12. Emission Data Sources: City of Albuquerque EPA Constituents: Particulate Matter <10 µm (PM10) Particulate Matter <2.5 µm (PM2.5) Sulfur Dioxide Carbon Monoxide Ozone

    13. Albuquerque Ambient Air Monitoring Stations

    14. Work Flow

    15. Analysis of Asthma Admissions Demographic Correlations Air Quality Correlations

    16. Analysis - demographics Identify census blocks with higher percentages of asthma admissions Look for spatial clustering and correlations between persons with asthma and: Race, age, and gender Housing type (own/rent, # of units, cost) bias that low-income households have sub-standard living conditions

    17. Analysis – air quality

    18. Analysis – air quality continued

    21. Open Source Applications re-visited Briefly discuss features and uses GRASS GIS R-spatial PostGIS QGIS OpenLayers MapServer

    22. Grass GIS Used for Desktop GIS Map generation Data visualization (2D, 2.5D and 3D) Spatial analysis Modeling Data formats supported Raster (2D and 3D) Vector (2D and 3D) Vector Point DBMS Support PostgreSQL/PostGIS, mySQL, SQLite, ODBC, ... Supported platforms Linux, Windows, Mac, and Handhelds

    23. GRASS GUI (http://grass.itc.it/screenshots/platforms.php

    24. R-spatial R is a language and environment for statistical computing and graphics Provides a variety of statistical and graphical techniques linear and nonlinear modeling, classical statistical tests, time-series analysis, classification, clustering Runs on Linux, Windows and Mac. Provides classes and methods for spatial data points, lines, polygons, grids Add-in package for GRASS GIS

    25. R-spatial Example Source: http://www.r-project.org/

    26. PostGIS PostGIS "spatially enables" the PostgreSQL database. It is a database server used as a backend spatial database for geographic information systems (GIS) Functions like ESRI's SDE or Oracle's Spatial extension. Supports Linux, Windows and Mac

    27. PostGIS continued The following is an example of a PostGIS script. The script can be called within a GIS, command line, web page, etc. The below example is a script that locates features within a distance of 5km.

    28. QGIS Quantum GIS (QGIS) runs on Linux, Windows, and Mac Supports many vector, raster, and database formats Supports many common spatial data formats (e.g. ESRI ShapeFile, geotiff) Supports many plug-ins display tracks from a GPS Perform spatial analysis and model via GRASS GIS

    29. QGIS GUI

    30. OpenLayers Web map application that displays geographic data from a variety of sources and data types Geographic data in DBMS and text files MapServer Aerial Photography (Virtual Earth, Google Maps, Yahoo Maps, TerraServer) WMS, WFS USGS Topographic Maps and DEMs TIGER data Client-sided (javascript and AJAX); browser independent

    31. OpenLayers Example http://maps.hostgis.com/rthicks/index.html

    32. MapServer Server-sided GIS for building spatially-enabled internet applications. Best for rendering spatial data for the web. Cross-platform support Linux, Windows, and Mac Support many raster and vector data formats TIFF/GeoTIFF, EPPL7, etc ESRI shapfiles, PostGIS, ESRI ArcSDE, Oracle Spatial, MySQL, etc Is a WMS and WFS client/server Offers map projection support On-the-fly map projection

    33. MapServer Example Source: http://maps.hostgis.com/mww-lib/?template=template2&map=/maps/rthicks/mapfile.map

    34. Links to Data and Applications

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