Metadata: Identification_Information: Citation: Citation_Information: Originator: Lisa M. Krigsman Originator: Mary M. Yoklavich Originator: Guy R. Cochrane Originator: Nadine E. Golden Publication_Date: 2013 Title: Short Sea Pens--Santa Barbara Channel, California Geospatial_Data_Presentation_Form: GeoTIFF Series_Information: Series_Name: Data Series Issue_Identification: DS 781 Publication_Information: Publication_Place: Reston, VA Publisher: U.S. Geological Survey Online_Linkage: https://doi.org/10.3133/ds781 Online_Linkage: https://pubs.usgs.gov/ds/781/SantaBarbaraChannel/data_catalog_SantaBarbaraChannel.html Larger_Work_Citation: Citation_Information: Originator: Nadine E. Golden Publication_Date: 2013 Title: California State Waters Map Series Data Catalog Geospatial_Data_Presentation_Form: database Series_Information: Series_Name: Data Series Issue_Identification: DS 781 Publication_Information: Publication_Place: Reston, VA Publisher: U.S. Geological Survey Online_Linkage: https://doi.org/10.3133/ds781 Description: Abstract: This part of DS 781 presents data for the map showing the predicted distribution of short sea pens in the Santa Barbara Channel, California, region. The raster data file is included in "ShortSeaPens_SantaBarbaraChannel.zip," which is accessible from https://pubs.usgs.gov/ds/781/SantaBarbaraChannel/data_catalog_SantaBarbaraChannel.html. Presence-absence data of benthic macro-invertebrates and associated habitat (that is, sediment type and depth) were collected using a towed camera sled in selected areas along the coast off southern California during a ground-truth observation cruise conducted by the U.S. Geological Survey and NOAA National Marine Fisheries Service for the California Seafloor Mapping Program. Benthic community structure was determined from 35 video towed-camera transects within California's State Waters 3-nautical-mile limit in the Santa Barbara Channel. These transects produced a total of 923 10-second observations from the Offshore of Refugio Beach map area (34.5 degrees N., 120.1 degrees W.) to the Hueneme Canyon and vicinity map area (34.1 degrees N., 119.2 degrees W.). Presence-absence data were collected for 29 benthic, structure-forming nonmobile taxa. Using this information, generalized linear models (GLMs) were developed to predict the probability of occurrence of five commonly observed taxa (cup corals, hydroids, short and tall sea pens, and brittle stars in the sediment) in five map areas within the Santa Barbara Channel (SBC). A sixth map area (Offshore of Carpinteria) was not modeled owing to insufficient data. The analysis demonstrates that the community structure for the five map areas can be divided into three statistically distinct groups: (1) the Hueneme Canyon and vicinity and the Offshore of Ventura map areas; (2) the Offshore of Santa Barbara and the Offshore of Coal Oil Point map areas; and (3) the Offshore of Refugio Beach map area. These three distinct groups are the main reason that the probability for each taxa can be so dramatically different within one predictive-distribution map area. The five most frequently observed benthic macro-invertebrate taxa were selected for these predictive-distribution grids. Presence-absence data for each selected invertebrate were fit to specific generalized linear models using geographic location, depth, and seafloor character as covariates. Data for the covariates were informed by the bathymetry, seafloor character, and other ground-truth data from the different map areas of the Santa Barbara Channel region that are part of the California State Waters Map Series DS 781. Observations based on depth were limited by the capability of the towed camera sled; as a result, no predictions were made below depths of 150 m (in other words, on the continental slope or in Hueneme Canyon). Cup corals and hydroids had high predicted probabilities of occurrence in areas of hard substrata, whereas short and tall sea pens were predicted to occur in parts of the SBC that had unconsolidated and mixed sediment. Our model predicted that brittle stars would occur throughout the entire SBC on various bottom types. Purpose: These data are intended for science researchers, students, policy makers, and the general public. The data can be used with geographic information systems (GIS) software to display oceanographic information. Supplemental_Information: Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government. Although this Federal Geographic Data Committee-compliant metadata file is intended to document the data set in nonproprietary form, as well as in Esri format, this metadata file may include some Esri-specific terminology. Time_Period_of_Content: Time_Period_Information: Range_of_Dates/Times: Beginning_Date: 2005 Ending_Date: 2009 Currentness_Reference: ground condition Status: Progress: Complete Maintenance_and_Update_Frequency: As needed Spatial_Domain: Bounding_Coordinates: West_Bounding_Coordinate: -119.643628 East_Bounding_Coordinate: -119.471725 North_Bounding_Coordinate: 34.390598 South_Bounding_Coordinate: 34.320467 Keywords: Theme: Theme_Keyword_Thesaurus: USGS Metadata Identifier Theme_Keyword: USGS:1f4a8e75-b293-4477-b340-b079b7016cd1 Theme: Theme_Keyword_Thesaurus: Global Change Master Directory (GCMD) Theme_Keyword: Marine Habitat Theme: Theme_Keyword_Thesaurus: ISO 19115 Topic Category Theme_Keyword: biota Theme_Keyword: oceans Theme: Theme_Keyword_Thesaurus: USGS Thesaurus Theme_Keyword: remote sensing Theme_Keyword: modeling Theme_Keyword: geospatial datasets Theme_Keyword: benthos Theme: Theme_Keyword_Thesaurus: None Theme_Keyword: biological prediction Theme_Keyword: fisheries Theme_Keyword: ecosystem Theme_Keyword: U.S. Geological Survey Theme_Keyword: USGS Theme_Keyword: Coastal and Marine Hazards and Resources Program Theme_Keyword: CMHRP Theme_Keyword: Pacific Coastal and Marine Science Center Theme_Keyword: PCMSC Place: Place_Keyword_Thesaurus: Geographic Names Information System (GNIS) Place_Keyword: Pacific Ocean Place_Keyword: California Place_Keyword: Santa Barbara Channel Place_Keyword: Hueneme Canyon Place_Keyword: Ventura Place_Keyword: Santa Barbara Place_Keyword: Coal Oil Point Place_Keyword: Refugio Beach Access_Constraints: None Use_Constraints: USGS-authored or produced data and information are in the public domain from the U.S. Government and are freely redistributable with proper metadata and source attribution. Please recognize and acknowledge the U.S. Geological Survey and NOAA National Marine Fisheries as the originator(s) of the dataset and in products derived from these data. This information is not intended for navigation purposes. Point_of_Contact: Contact_Information: Contact_Organization_Primary: Contact_Organization: U.S. Geological Survey, Pacific Coastal and Marine Science Center Contact_Person: PCMSC Science Data Coordinator Contact_Address: Address_Type: mailing and physical Address: 2885 Mission Street City: Santa Cruz State_or_Province: CA Postal_Code: 95060-5792 Country: US Contact_Voice_Telephone: 831-427-4747 Contact_Electronic_Mail_Address: pcmsc_data@usgs.gov Browse_Graphic: Browse_Graphic_File_Name: https://pubs.usgs.gov/ds/781/SantaBarbaraChannel/images/ShortSeaPens_SantaBarbaraChannel.jpg Browse_Graphic_File_Description: Map of predicted distribution of short sea pens in the Santa Barbara Channel region. Browse_Graphic_File_Type: JPEG Data_Set_Credit: The authors would like to thank E.J. Dick (Fisheries Ecology Division, Southwest Fisheries Science Center, Santa Cruz, CA). He was a critical partner in the development of the predictive models used in this study. Native_Data_Set_Environment: Microsoft Windows XP Version 5.1 (Build 2600) Service Pack 3 ESRI ArcCatalog 9.3.1.3500 Cross_Reference: Citation_Information: Originator: Samuel Y. Johnson Originator: Peter Dartnell Originator: Guy R. Cochrane Originator: Nadine E. Golden Originator: Eleyne L. Phillips Originator: Andrew C. Ritchie Originator: Rikk G. Kvitek Originator: H. Gary Greeene Originator: Lisa M. Krigsman Originator: Charles A. Endris Originator: Kevin B. Clahan Originator: Ray W. Sliter Originator: Florence L. Wong Originator: Mary M. Yoklavich Originator: William R. Normark Publication_Date: 2012 Title: California State Waters Map Series--Hueneme Canyon and Vicinity, California Geospatial_Data_Presentation_Form: pamphlet and map sheets Series_Information: Series_Name: Scientific Investigations Map Issue_Identification: 3225 Publication_Information: Publication_Place: Reston, VA Publisher: U.S. Geological Survey Online_Linkage: https://doi.org/10.3133/sim3225 Data_Quality_Information: Attribute_Accuracy: Attribute_Accuracy_Report: Pixel resolution 2 m. Logical_Consistency_Report: Logical Consistency untested. Completeness_Report: Please see SIM pamphlet, chapter 5, for information about omissions, selection criteria, generalization, definitions used, and other rules used to derive the data set. Positional_Accuracy: Horizontal_Positional_Accuracy: Horizontal_Positional_Accuracy_Report: On the order of 10 meters. Lineage: Process_Step: Process_Description: The seafloor-character map, GLMs, and the Marine Geospatial Ecology Tool (MGET; http://mgel.env.duke.edu) in ArcGIS were used to develop predictive-probability maps of occurrence per 12 sq m of seafloor for selected invertebrate taxa. The 12 sq m area was calculated by multiplying the average width of the video images by the average distance covered during the 10-second samples. The seafloor-character map provided the habitat-class data. > > Short sea pen > taxa~Class + Depth + I(Depth^2) + Block + Class:Depth + Depth:Block # Class + Depth + I(Depth^2) + Block + Class:Depth + Depth:Block tryCatch(taxa39.glm <- glm(taxa~Class + Depth + I(Depth^2) + Block + Class:Depth + Depth:Block, family=binomial(link="logit"), data=taxa.df), > warning = function(x) { output.df[39,"flag"] <<- 1 }, > finally = taxa39.glm <- glm(taxa~Class + Depth + I(Depth^2) + Block + Class:Depth + Depth:Block, family=binomial(link="logit"), > data=taxa.df) > ) > summary(taxa39.glm) > > MODEL SUMMARY: > ============== > > Call: > glm(formula = sea_pen ~ factor(Class) + Depth + I(Depth^2) + factor(Block) + factor(Class):Depth + Depth:factor(Block), family = binomial(link="logit"), data = na.omit(d)) > > Deviance Residuals: > Min 1Q Median 3Q Max > -1.4645 -0.7480 -0.3860 0.9540 2.9356 > > Coefficients: > Estimate Std. Error z value Pr(>|z|) > (Intercept) -3.138e+00 6.630e-01 -4.733 2.21e-06 *** > factor(Class)2 -9.053e+00 3.949e+00 -2.293 0.0219 * > factor(Class)3 -1.622e+01 1.872e+03 -0.009 0.9931 > Depth 1.337e-01 2.207e-02 6.059 1.37e-09 *** > I(Depth^2) -1.420e-03 1.907e-04 -7.446 9.63e-14 *** > factor(Block)2 -4.692e-01 5.494e-01 -0.854 0.3930 > factor(Block)3 -5.054e+00 9.788e-01 -5.163 2.43e-07 *** > factor(Class)2:Depth 1.005e-01 4.916e-02 2.045 0.0409 * > factor(Class)3:Depth -1.080e-02 3.493e+01 -0.000309 0.9998 > Depth:factor(Block)2 2.188e-02 8.514e-03 2.570 0.0102 * > Depth:factor(Block)3 9.206e-02 1.755e-02 5.246 1.56e-07 *** > --- > Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 > > (Dispersion parameter for binomial family taken to be 1) > > Null deviance: 1097.53 on 922 degrees of freedom > Residual deviance: 861.56 on 912 degrees of freedom > AIC: 883.56 > > Number of Fisher Scoring iterations: 16 > > Analysis of Deviance Table > > Model: binomial, link: logit > > Response: sea_pen > > Terms added sequentially (first to last) > > > Df Deviance Resid. Df Resid. Dev > NULL 922 1097.53 > factor(Class) 2 63.96 920 1033.57 > Depth 1 15.64 919 1017.93 > I(Depth^2) 1 78.00 918 939.92 > factor(Block) 2 44.71 916 895.21 > factor(Class):Depth 2 6.68 914 888.53 > Depth:factor(Block) 2 26.97 912 861.56 > resample to 10 meters Krigsman, L.M., M.M. Yoklavich, E.J. Dick, and G.R. Cochrane (2012) Models and maps: predicting the distribution of corals and other benthic macro-invertebrates in shelf habitats. Ecosphere 3:1-16. Process_Date: 2010 Process_Step: Process_Description: Metadata was modified to bring up to current USGS PCMSC standards. USGS Thesaurus and keywords were added, and added keywords section with USGS persistent identifier as theme keyword. Information about the data available for download and different Network Resource Name links and details were given in the Standard Order Process section. Minor typos were corrected. No data information was changed. The metadata available from a harvester may supersede metadata bundled within a download file. Users are advised to compare the metadata dates to determine which metadata file is most recent. Process_Date: 20230501 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Susan A Cochran Contact_Organization: U.S. Geological Survey, Pacific Coastal and Marine Science Center Contact_Position: Geologist Contact_Address: Address_Type: mailing and physical address Address: 2885 Mission Street City: Santa Cruz State_or_Province: CA Postal_Code: 95060-5792 Country: USA Contact_Voice_Telephone: (831) 460-7545 Contact_Electronic_Mail_Address: scochran@usgs.gov Spatial_Data_Organization_Information: Direct_Spatial_Reference_Method: Raster Raster_Object_Information: Raster_Object_Type: Pixel Row_Count: 23905 Column_Count: 47950 Vertical_Count: 1 Spatial_Reference_Information: Horizontal_Coordinate_System_Definition: Planar: Map_Projection: Map_Projection_Name: WGS 1984 UTM Zone 11N Transverse_Mercator: Scale_Factor_at_Central_Meridian: 0.9996 Longitude_of_Central_Meridian: -117.0 Latitude_of_Projection_Origin: 0.0 False_Easting: 500000.0 False_Northing: 0.0 Planar_Coordinate_Information: Planar_Coordinate_Encoding_Method: coordinate pair Coordinate_Representation: Abscissa_Resolution: 0.000000002220024164500956 Ordinate_Resolution: 0.000000002220024164500956 Planar_Distance_Units: Meter Geodetic_Model: Horizontal_Datum_Name: D WGS 1984 Ellipsoid_Name: WGS 1984 Semi-major_Axis: 6378137.0 Denominator_of_Flattening_Ratio: 298.257223563 Entity_and_Attribute_Information: Detailed_Description: Entity_Type: Entity_Type_Label: shortseapens Entity_Type_Definition: The raster attributes include VALUE - code for the Predicted-Distribution of Short Sea Pens for Santa Barbara Channel Region and COUNT - number of pixels. Entity_Type_Definition_Source: ESRI Attribute: Attribute_Label: Rowid Attribute_Definition: Internal feature number. Attribute_Definition_Source: ESRI Attribute_Domain_Values: Unrepresentable_Domain: Sequential unique whole numbers that are automatically generated. Attribute: Attribute_Label: VALUE Attribute_Definition: VALUE - code for the Predicted-Distribution of Short Sea Pens for Santa Barbara Channel Region Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 2.22045e-016 Range_Domain_Maximum: .705603 Attribute: Attribute_Label: COUNT Attribute_Definition: The number of pixels (2 m x 2 m size grid cell) represented in each probability raster (see Attribute: VALUE). Attribute_Definition_Source: ESRI Attribute_Domain_Values: Unrepresentable_Domain: Sequential unique whole numbers that are automatically generated. Distribution_Information: Distributor: Contact_Information: Contact_Organization_Primary: Contact_Organization: U.S. Geological Survey Contact_Address: Address_Type: mailing and physical address Address: 345 Middlefield Rd City: Menlo Park State_or_Province: CA Postal_Code: 94025-3561 Country: USA Contact_Voice_Telephone: (650) 329-4309 Resource_Description: The .zip file includes the .lyr, .tfw, .tif, .tif.aux.xml, and .tif.ovr files, as well as FGDC-compliant metadata. Distribution_Liability: Unless otherwise stated, all data, metadata and related materials are considered to satisfy the quality standards relative to the purpose for which the data were collected. Although these data and associated metadata have been reviewed for accuracy and completeness and approved for release by the U.S. Geological Survey (USGS), no warranty expressed or implied is made regarding the display or utility of the data on any other system or for general or scientific purposes, nor shall the act of distribution constitute any such warranty. Standard_Order_Process: Digital_Form: Digital_Transfer_Information: Format_Name: TIFF Format_Version_Number: 9.3.1 Format_Specification: Arcinfo grid File_Decompression_Technique: windows winzip or unix gunzip Transfer_Size: 889 Digital_Transfer_Option: Online_Option: Computer_Contact_Information: Network_Address: Network_Resource_Name: https://pubs.usgs.gov/ds/781/SantaBarbaraChannel/data/ShortSeaPens_SantaBarbaraChannel.zip Network_Resource_Name: https://pubs.usgs.gov/ds/781/SantaBarbaraChannel/data_catalog_SantaBarbaraChannel.html Network_Resource_Name: https://pubs.usgs.gov/ds/781/ Access_Instructions: The first link will begin a direct download of the data. The second link is a landing page on which all of the downloadable data for a particular region are listed. The third link is a landing page for the entire data catalog. Fees: none Technical_Prerequisites: The downloadable data file has been compressed with the "zip" command and can be unzipped with Winzip (or other tool) on Windows systems. To utilize these data, the user must have software capable of uncompressing the WinZip file and importing and viewing an Esri ArcMap TIFF. Users should download the ArcGIS Project File, SantaBarbaraChannelGIS.mxd.zip, a compressed (with the "zip" command) version of the ArcMap document (.mxd) that has all the data layers loaded in the table of contents for the Santa Barbara Channel region, and has all the data symbolized as on the map sheets. Download and save this ArcGIS project file, including all data layers, to the directory the user has created for this GIS. Metadata_Reference_Information: Metadata_Date: 20230501 Metadata_Contact: Contact_Information: Contact_Organization_Primary: Contact_Organization: U.S. Geological Survey, Pacific Coastal and Marine Science Center Contact_Person: PCMSC Science Data Coordinator Contact_Address: Address_Type: mailing and physical Address: 2885 Mission Street City: Santa Cruz State_or_Province: CA Postal_Code: 95060-5792 Country: US Contact_Voice_Telephone: 831-427-4747 Contact_Electronic_Mail_Address: pcmsc_data@usgs.gov Metadata_Standard_Name: Content Standard for Digital Geospatial Metadata Metadata_Standard_Version: FGDC-STD-001-1998 Metadata_Time_Convention: local time