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Girvetz, EH, Thorne JH, Quinn JF, McCoy MC.  2008.  Early Biological Mitigation Needs Assessment: Elkhorn Slough Pilot Project.. Caltrans.
Huber, GP l EH, Thorne JH, Hollander A, Quinn JF, McCoy. MC.  2008.  Early biological mitigation needs assessment: Pleasant Grove pilot project. Caltrans.
Parks, BO, Fornwall MD, eds. James F. Quinn.  2004.  First NBII Biodiversity Modeling Workshop: Results and Recommendations. Proceedings of NBII Biodiversity Modeling Workshop, July 27-31, 2003, Maui, HI.. U. S. Geological Survey, Center for Biological Informatics. .
Johnson, ML, Pasternack GB, Florsheim JL, Werner I, Smith TB, Bowen L, Turner M, Viers JH, Steinmetz J, Constantine JA et al..  2002.  North Coast River Loading Study Road Crossing On Small Streams Volume I. Status of Salmonids in the Watershed. Caltrans Report #CTSW-RT-02-040. :108.
Johnson, ML, Pasternack GB, Florsheim JL, Werner I, Smith TB, Bowen L, Turner M, Viers JH, Steinmetz J, Constantine JA et al..  2002.  North Coast River Loading Study Road Crossing On Small Streams Volume II. Stressors of Salmonids. Caltrans Report #CTSW-RT-02-040. :114.
Johnson, ML, Pasternack GB, Florsheim JL, Werner I, Smith TB, Bowen L, Turner M, Viers JH, Steinmetz J, Constantine JA et al..  2002.  North Coast River Loading Study Road Crossing On Small Streams Volume III. Impacts of Stressors on Salmonids. Caltrans Report #CTSW-RT-02-040. :77.
Viers, JH, Ramirez CM, Quinn JF.  2003.  On the uses of hyperspectral data analysis and watershed analytical methods to evaluate the extent of riparian vegetation and habitat in the Navarro River, California.
Thorne, JH, Girvetz E, McCoy. MC.  2008.  Report on California state-wide mitigation needs forecasting database.
Proceedings Article
Underwood, EC, Aguiar F, Brandu G.  2005.  Developing predictive models of invasive plants. Invasive plants in Mediterranean type regions of the world.
Ustin, SL, DiPietro D, Olmstead K, Underwood EC, Scheer G.  2002.  Hyperspectral remote sensing for invasive species detection and mapping. International Geoscience and Remote Sensing Symposium: 24th Canadian Symposium on Remote Sensing.
Viers, JH, Sailer CT, Ramirez CM, Quinn JF, Johnson ML, Green RO.  2002.  An Integrated Approach to the Discrimination of Riparian Vegetation in the Navarro River Watershed. Eleventh JPL Airborne Earth Science Workshop.
Bai, S, Niemeier DA, Handy SL, Gao S, Kleeman MJ, Lund JR, Sullivan D C.  2007.  Integrated Impacts of Regional Development, Land Use Strategies and Transportation Planning on Future Air Pollution Emissions. 2007 Transportation Land-use Planning & Air Quality Conference.
Gao, S, Johnston RA, McCoy MC.  2007.  Neighborhood economic and racial succession: Understanding this process of decline and its effects on residential choice in land use models. 10th International Conference on Computers in Urban Planning and Urban Management.
Viers, JH, McCoy MC, Quinn JF, Johnson ML.  1999.  Nonpoint Source Pollution Modeling in the North Coast of California Within a GIS: A Predictive Screening Tool for Watershed Management. ESRI International User Conference.
Gao, S, Johnston RA.  2005.  The spatial mismatch hypothesis: Critique of research and proposed methods. Transportation Research Board 84th Annual Meeting.
Kearney, JE, Viers JH, Willet KB, McCoy MC, Quinn JF.  1999.  Using GIS to Improve Water Quality Reporting in California. ESRI International User Conference.
Viers, JH, Hoyos RV, Mullins JC, Lehmer E, Byrne MS, McCoy MC, Quinn JF.  2000.  Watershed Analysis Tool for Environmental Resources: GIS Technology in the New Millennium. ESRI International User Conference.
Journal Article
Dobrowski, SZ, Greenberg JA, and Ustin RCMSL.  2005.   Improving image derived vegetation maps with regression based distribution modeling. Ecological Modelling.
Hart, BL, Hart LA, McCoy MC, Sarath CR.  2001.   Improving image derived vegetation maps with regression based distribution modeling. Animal Behaviour. 62:839-847.
Adjemian, JCZ, Girvetz EH, Beckett L, Foley JE.  2006.  Analysis of Genetic Algorithm for Rule-Set Production (GARP) modeling approach for predicting distributions of fleas implicated as vectors of plague, Yersinia pestis, in California. JOURNAL OF MEDICAL ENTOMOLOGY. 43:93--103. Abstract
Williams, JW, Seabloom EW, Slayback D, Stoms DM, Viers JH.  2005.  Anthropogenic impacts upon plant species richness and net primary productivity in California. ECOLOGY LETTERS. 8:127--137. Abstract
Shook, CD, Madison ME, Willett KW, Quinn JF, McCoy MC.  1999.  Applied Geographic Information Systems in Cooperative Natural Resource Projects: A California Example. ESRI International Users Conference.
Larsen, EW, Girvetz EH, Fremier AK.  2006.  Assessing the effects of alternative setback channel constraint scenarios employing a river meander migration model. ENVIRONMENTAL MANAGEMENT. 37:880--897. Abstract
STOHLGREN, TJ, Quinn JF.  1992.  AN ASSESSMENT OF BIOTIC INVENTORIES IN WESTERN UNITED-STATES NATIONAL-PARKS. NATURAL AREAS JOURNAL. 12:145--153. Abstract
Shilling, F, Girvetz E.  2007.  Barriers to implementing a wildland network. Landscape and Urban Planning. 80:165-172.