Metadata: Identification_Information: Citation: Citation_Information: Originator: Joanne C. T. Ferreira Originator: Daniel J. Nowacki Originator: SeanPaul M. La Selle Publication_Date: 20240711 Title: Computed Tomography (CT) scans of sediment cores collected from Cargill Marsh, South San Francisco Bay, California during field activities 2022-643-FA and 2023-681-FA Geospatial_Data_Presentation_Form: raster digital data Series_Information: Series_Name: data release Issue_Identification: DOI:10.5066/P15AORBR Publication_Information: Publication_Place: Pacific Coastal and Marine Science Center, Santa Cruz, California Publisher: U.S. Geological Survey Online_Linkage: https://doi.org/10.5066/P15AORBR Larger_Work_Citation: Citation_Information: Originator: Joanne C. T. Ferreira Originator: Daniel J. Nowacki Originator: SeanPaul M. La Selle Publication_Date: 2024 Title: Sediment core data collected from Cargill Marsh, South San Francisco Bay, California during field activities 2022-643-FA and 2023-681-FA Series_Information: Series_Name: data release Issue_Identification: DOI:10.5066/P15AORBR Publication_Information: Publication_Place: Pacific Coastal and Marine Science Center, Santa Cruz, CA Publisher: U.S. Geological Survey Other_Citation_Details: Suggested Citation: Ferreira, J.C.T., Nowacki, D.J., and La Selle, S.M., 2024, Sediment core data collected from Cargill Marsh, South San Francisco Bay, California during field activities 2022-643-FA and 2023-681-FA: U.S. Geological Survey data release, https://doi.org/10.5066/P15AORBR. Online_Linkage: https://doi.org/10.5066/P15AORBR Description: Abstract: This dataset includes computed tomography (CT) scans of sediment cores collected from Cargill Marsh, South San Francisco Bay, California on June 21, 2022, and December 14, 2023. The cores were collected with hand driven push cores to assess sediment accumulation on the marsh. CT images are provided in the original 16-bit grayscale TIFF format. Purpose: These cores were collected to measure sediment accumulation as part of a study to quantify sediment fluxes and changes in marsh morphology on marshes in southern San Francisco Bay. Supplemental_Information: Cores were collected, analyzed, and archived by USGS, Pacific Coastal and Marine Science Center. Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government. Information about the data collection field activities can be found at: http://cmgds.marine.usgs.gov/fan_info.php?fan=2022-643-FA http://cmgds.marine.usgs.gov/fan_info.php?fan=2023-681-FA Time_Period_of_Content: Time_Period_Information: Range_of_Dates/Times: Beginning_Date: 20220621 Ending_Date: 20231214 Currentness_Reference: Ground conditions at time data were collected Status: Progress: Complete Maintenance_and_Update_Frequency: None planned Spatial_Domain: Bounding_Coordinates: West_Bounding_Coordinate: -122.13863 East_Bounding_Coordinate: -122.13845 North_Bounding_Coordinate: 37.59074 South_Bounding_Coordinate: 37.58864 Keywords: Theme: Theme_Keyword_Thesaurus: USGS Metadata Identifier Theme_Keyword: USGS:d2aaac97-b5e6-4955-835a-30851e0266e5 Theme: Theme_Keyword_Thesaurus: ISO 19115 Topic Category Theme_Keyword: oceans Theme_Keyword: geoscientificInformation Theme: Theme_Keyword_Thesaurus: USGS Thesaurus Theme_Keyword: core analysis Theme_Keyword: ocean processes Theme_Keyword: sediment transport Theme_Keyword: geospatial datasets Theme: Theme_Keyword_Thesaurus: Data Categories for Marine Planning Theme_Keyword: substrate Theme: Theme_Keyword_Thesaurus: Marine Realms Information Bank (MRIB) keywords Theme_Keyword: sediment Theme: Theme_Keyword_Thesaurus: None 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 Theme_Keyword: Department of the Interior Theme_Keyword: field activity number 2022-643-FA Theme_Keyword: field activity number 2023-681-FA Theme_Keyword: DOI Place: Place_Keyword_Thesaurus: Geographic Names Information System (GNIS) Place_Keyword: Alameda County Place_Keyword: San Francisco Bay Place_Keyword: State of California Place: Place_Keyword_Thesaurus: None Place_Keyword: Cargill Marsh Place_Keyword: Whale's Tail Marsh Place_Keyword: Whale's Tail South Marsh Place_Keyword: Eden Landing Ecological Reserve Access_Constraints: No access constraints. Please see 'Distribution Info' for details. 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 as the originator(s) of the dataset and in products derived from these data. Point_of_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: PCMSC Science Data Coordinator Contact_Organization: U.S. Geological Survey, Pacific Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 2885 Mission Street City: Santa Cruz State_or_Province: CA Postal_Code: 95060 Contact_Voice_Telephone: 831-427-4747 Contact_Electronic_Mail_Address: pcmsc_data@usgs.gov Browse_Graphic: Browse_Graphic_File_Name: ct_color_enhanced_RC02_60-70cm.png Browse_Graphic_File_Description: Preview of a CT image from core RC02, with a false colormap applied to CT intensity values. Color enhanced image has identical information as the grey scale images in the zipped file. Browse_Graphic_File_Type: PNG Native_Data_Set_Environment: Computed tomography (CT) images were obtained with a Geotek Rotating X-ray CT (RXCT) system. Cross_Reference: Citation_Information: Originator: Joanne C. T. Ferreira Originator: Jessica R. Lacy Originator: Samantha C. McGill Originator: Lukas T. WinklerPrins Originator: Daniel J. Nowacki Originator: Andrew W. Stevens Originator: Angela C. Tan Publication_Date: 2023 Title: Hydrodynamic and sediment transport data from Whale's Tail South marsh and adjacent waters in South San Francisco Bay, California 2021-2022 Online_Linkage: https://doi.org/10.5066/P972R6AW Cross_Reference: Citation_Information: Originator: Joanne C. T. Ferreira Originator: Daniel J. Nowacki Publication_Date: 2024 Title: Information on sediment cores collected from Cargill Marsh, South San Francisco Bay, California during field activities 2022-643-FA and 2023-681-FA Other_Citation_Details: Core location information for these CT scans have been published in a separate section in this data release Online_Linkage: https://doi.org/10.5066/P15AORBR Data_Quality_Information: Attribute_Accuracy: Attribute_Accuracy_Report: Quality control of attribute accuracy was conducted during field data collection and processing workflows. No formal attribute accuracy tests were conducted. Logical_Consistency_Report: No formal logical consistency tests were conducted. Completeness_Report: Dataset is considered complete for the information presented, as described in the abstract. Users are advised to read the rest of the metadata record carefully for additional details. Positional_Accuracy: Horizontal_Positional_Accuracy: Horizontal_Positional_Accuracy_Report: A RTK GPS system was used for obtaining latitude and longitude point locations during the field activity with centimeter accuracy. As each core site required two adjacent cores to complete the 90 cm length, the horizontal position accuracy of 50 cm is reasonable. Vertical_Positional_Accuracy: Vertical_Positional_Accuracy_Report: Core depth values are relative to the top of sediment surface at the time of core collection. Coring-induced compaction, if any, was not determined. No formal vertical accuracy tests were conducted. Lineage: Process_Step: Process_Description: Sediment cores were collected from the marsh environment on Cargill Marsh in Eden Landing Environmental Reserve, Alameda County, California using a Russian corer (a hand-held, side-filling peat auger). At each core site, two adjacent cores holes were used to sample sediment in 50 cm intervals with a 10 cm overlapping section resulting in undisturbed sediment cores of 90 cm length. Cores were transported back to the USGS Pacific Coastal and Marine Science Center for imaging, and subsequently sectioned in two cm samples for Cesium-137 analyses. Not all segments of the cores were analyzed. Process_Date: 2023 Process_Step: Process_Description: CT scans were acquired at the USGS Pacific Coastal and Marine Science Center core facility using a Geotek Rotating X-Ray CT (RXCT) Scanner system, running acquisition software version XCT4. Rotational x-ray images were acquired with a Thermo Kevex PSX10-65W x-ray source every 0.2 degrees at 130 kilovolts (kV) and 330 microamperes. Core segments were scanned in batches of two to three segments. Rotational images were reconstructed into axial slice TIFFs using Geotek’s Reconstructor Software. Once reconstructed, the axial slice TIFFs were imported into GeoTek's Image Viewer software and a representative two-dimensional orthogonal view was selected. TIFFs are provided in 16-bit unsigned integer, single channel format. Scaling information is embedded in the TIFF files and also provided in the associated XML files. File names correspond to the names of the cores within each scan. For example, ‘2022-643-FA_CAR-RC02-0-50cm.TIF' corresponds to the CT image of core segments collected during field activity 2022-643-FA,'CAR' refers to the Cargill Marsh, and 'RC-02' to the core location within the marsh. '0-50cm' or '40-90cm' refers to the depth of the core relative to the surface of the marsh. Photographic images of these cores are available in a separate section of this data release. Process_Date: 2023 Spatial_Data_Organization_Information: Direct_Spatial_Reference_Method: Point Point_and_Vector_Object_Information: SDTS_Terms_Description: SDTS_Point_and_Vector_Object_Type: Point Point_and_Vector_Object_Count: 6 Spatial_Reference_Information: Vertical_Coordinate_System_Definition: Depth_System_Definition: Depth_Datum_Name: Local surface Depth_Resolution: 1.0 Depth_Distance_Units: centimeters Depth_Encoding_Method: Attribute values Entity_and_Attribute_Information: Detailed_Description: Entity_Type: Entity_Type_Label: cargill_cores_ct.zip Entity_Type_Definition: A zip file containing 6 TIFF files of CT images and their respective software-proprietary XML files. Entity_Type_Definition_Source: Producer defined Attribute: Attribute_Label: orthogonal CT image metadata XML file Attribute_Definition: This Geotek software-proprietary XML file contains information on CT scan acquisition settings and reconstruction settings. The following attributes and example attribute values are provided: giCTOrthogonalView CAR22-RC02 1 8.70 102.65 0.01 108 108 940 5496 Enter Comments Here Thermo Kevex PSX10-65W 1 XZ_CAR22-RC02-0-50cm.TIF 130 330 63 220.64 591.85 2x2 Enabled=False,WindowCount=2,Window=400,SigmaA=0.1,SigmaV=0.0005,Weight=0.4,Window=100,SigmaA=0.1,SigmaV=0.0005,Weight=1,Reduction=0.85 0 Attribute_Definition_Source: producer defined Attribute_Domain_Values: Unrepresentable_Domain: These Geotek software-proprietary XML files contain information on CT scan acquisition settings and image scaling information. The values in the example provided may be different for each scan. Please contact the PCMSC data coordinator for more information on the contents of these XML files. Distribution_Information: Distributor: Contact_Information: Contact_Organization_Primary: Contact_Organization: U.S. Geological Survey - CMGDS Contact_Address: Address_Type: mailing address Address: 2885 Mission Street City: Santa Cruz State_or_Province: CA Postal_Code: Santa Cruz Country: United States Contact_Voice_Telephone: 831-427-4747 Contact_Electronic_Mail_Address: pcmsc_data@usgs.gov Resource_Description: CT images are provided in a zip archive (Cargill_cores_ct.zip) with CSDGM FGDC compliant metadata. Please contact the PCMSC Data Coordinator about availability of full 3D CT scan volumes. 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, XML Format_Version_Number: Geotek RXCT Scanner system, software version XCT4 Format_Information_Content: Zip file contains CT core imagery in TIFF format and associated proprietary metadata in XML format. File_Decompression_Technique: Zip file may be decompressed with any zip utility (e.g., 7zip, WinZip, Archive Utility). Transfer_Size: 48.5 Digital_Transfer_Option: Online_Option: Computer_Contact_Information: Network_Address: Network_Resource_Name: https://doi.org/10.5066/P15AORBR Access_Instructions: Data can be downloaded using the Network_Resource_Name link and scrolling to Cargill_cores_ct.zip in the Imagery Data section. Fees: None. Technical_Prerequisites: CT images can be viewed with any standard image software. Proprietary metadata XML files can be viewed with any standard text editing software. Metadata_Reference_Information: Metadata_Date: 20240711 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 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