Joanne C. T. Ferreira Daniel J. Nowacki SeanPaul M. La Selle 20240711 TIFF format images data release DOI:10.5066/P15AORBR Pacific Coastal and Marine Science Center, Santa Cruz, California U.S. Geological Survey https://doi.org/10.5066/P15AORBR Joanne C. T. Ferreira Daniel J. Nowacki SeanPaul M. La Selle 2024 data release DOI:10.5066/P15AORBR Pacific Coastal and Marine Science Center, Santa Cruz, CA U.S. Geological Survey 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. https://doi.org/10.5066/P15AORBR This dataset includes photographs (linescan images) 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. 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. 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 20220621 20231214 Ground conditions at time data were collected Complete None planned -122.13863 -122.13845 37.59074 37.58864 USGS Metadata Identifier USGS:ceef51f0-0d3f-46d8-8fd7-fe4cdba208ed ISO 19115 Topic Category oceans geoscientificInformation USGS Thesaurus core analysis ocean processes sediment transport geospatial datasets Data Categories for Marine Planning substrate Marine Realms Information Bank (MRIB) keywords sediment None U.S. Geological Survey USGS Coastal and Marine Hazards and Resources Program CMHRP Pacific Coastal and Marine Science Center PCMSC Department of the Interior DOI field activity number 2022-643-FA field activity number 2023-681-FA Geographic Names Information System (GNIS) Alameda County San Francisco Bay State of California None Cargill Marsh Whale's Tail marsh Whale's Tail South marsh Eden Landing Ecological Reserve No access constraints. Please see 'Distribution Info' for details. 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. PCMSC Science Data Coordinator U.S. Geological Survey, Pacific Coastal and Marine Science Center mailing and physical

2885 Mission Street

Santa Cruz CA 95060 831-427-474 pcmsc_data@usgs.gov RC02-60-70cm_photo_preview.png Example linescan image of a section of core from core RC02. PNG Linescan photographs were obtained with a Geotek Linescan V camera system. Joanne C. T. Ferreira Daniel J. Nowacki 2024 Core location information for these images have been published in a separate section in this data release https://doi.org/10.5066/P15AORBR Joanne C. T. Ferreira Jessica R. Lacy Samantha C. McGill Lukas T. WinklerPrins Daniel J. Nowacki Andrew W. Stevens Angela C. Tan 2023 https://doi.org/10.5066/P972R6AW Quality control of attribute accuracy was conducted during field data collection and processing workflows. No formal attribute accuracy tests were conducted. No formal logical consistency tests were conducted. 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. 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. 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. 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 CT analyses. Not all segments of the cores were analyzed. 2023 Sediment surfaces were cleaned and smoothed prior to scanning. Linescan images were obtained using a Geotek V Linescan Imaging system mounted to a Geotek Multisensor Core Logger (MSCL). A prime lens with a 50 mm focal length was mounted 38.6 cm above the core surface. Cross polarized light emitting diodes (LED) were used to illuminate the sediment surface. Colors were calibrated in the Geotek Linescan software using an 18 percent gray card, and images were acquired at an aperture of f3.43 and exposure time of 40 milliseconds. TIFFs are provided in 16-bit RGB TIFF 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, 'CAR-RC02-0-50cm_001_01.TIF' corresponds to the linescan 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. The suffix of '_001_01' is retained from the automatic processing to differentiate photographic from other imagery of the same core. Computed tomography images of these cores are available in a separate section of this data release. 2023 Point Point 6 Local surface 1.0 centimeters Attribute values cargill_cores_linescan.zip A zip file containing 6 TIFF files of linescan images and their respective software-proprietary XML files . Producer defined Linescan metadata XML files Each linescan TIFF file is accompanied by a Geotek software-proprietary XML file with the same filename. The following attributes and example attribute values are provided: <geotek-image> <image-type>giTIFImage</image-type> <coreID>CAR-RC02-0-50cm</coreID> <section-number>1</section-number> <image-number>1</image-number> <physical-width>6.98</physical-width> <physical-height>50.20</physical-height> <physical-top>0.00</physical-top> <pixels-per-scan>5</pixels-per-scan> <pixels-per-CM>200</pixels-per-CM> <horizontal-resolution>200</horizontal-resolution> <exposure-time-ms>40</exposure-time-ms> <calibration-aperture>3.43</calibration-aperture> <image-aperture>3.43</image-aperture> <red-high-calibration>18.0</red-high-calibration> <green-high-calibration>18.0</green-high-calibration> <blue-high-calibration>18.0</blue-high-calibration> <red-low-calibration>0.0</red-low-calibration> <green-low-calibration>0.0</green-low-calibration> <blue-low-calibration>0.0</blue-low-calibration> <pixel-width>1395</pixel-width> <scan-lines>10040</scan-lines> <filename>CAR-RC02-0-50cm_001_01.tif</filename> <geotek-camera-lighting version="2" mode="visible"> <visible-lighting-data> <bank-two> <bank2cluster1>59</bank2cluster1> <bank2cluster2>59</bank2cluster2> <bank2cluster3>59</bank2cluster3> <bank2cluster4>59</bank2cluster4> <bank2cluster5>59</bank2cluster5> </bank-two> <bank-one> <bank1cluster1>59</bank1cluster1> <bank1cluster2>59</bank1cluster2> <bank1cluster3>59</bank1cluster3> <bank1cluster4>59</bank1cluster4> <bank1cluster5>59</bank1cluster5> </bank-one> </visible-lighting-data> </geotek-camera-lighting> <convg-x-red>0</convg-x-red> <convg-x-green>0</convg-x-green> <convg-x-blue>0</convg-x-blue> <convg-y-red>0</convg-y-red> <convg-y-green>4</convg-y-green> <convg-y-blue>8</convg-y-blue> <is-a-sync-scan-image>0</is-a-sync-scan-image> </geotek-image> producer defined These Geotek software-proprietary XML files contain information on linescan 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. U.S. Geological Survey - CMGDS mailing address

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Santa Cruz CA Santa Cruz United States 831-427-4747 pcmsc_data@usgs.gov Photographic images are provided in a zip archive (cargill_cores_linescan.zip) with CSDGM FGDC compliant metadata. 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. TIFF, XML Zip file contains core photographs in TIFF format and associated proprietary metadata in XML format. Zip file may be decompressed with any zip utility (e.g., 7zip, WinZip, Archive Utility). 515.9 https://doi.org/10.5066/P15AORBR Data can be downloaded using the Network_Resource_Name link and scrolling to cargill_cores_linescan.zip in the Imagery Data section. None. Linescan images can be viewed with any standard image software. Proprietary metadata XML files can be viewed with any standard text editing software. 20240711 U.S. Geological Survey, Pacific Coastal and Marine Science Center PCMSC Science Data Coordinator mailing and physical

2885 Mission Street

Santa Cruz CA 95060 831-427-4747 pcmsc_data@usgs.gov Content Standard for Digital Geospatial Metadata FGDC-STD-001-1998