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    • Oenothera deltoides genotype data from Contra Costa County, California in 2019

    Metadata Updated: July 6, 2024

    This dataset contains 212 samples from 8 Oenothera deltoides subsp. howellii occurrences, 3 occurrences of the unknown taxon- clade X, and 3 occurrences of related Oenothera deltoides subsp. cognata. Genomic markers were generated from ddRAD loci (Peterson and others, 2012) and analyzed using the Stacks v2.53 (Catchen and others, 2013) pipeline. The genotypes for all samples are provided in a VCF file with 2,693 independent loci and 15 percent missing data. A companion file is provided with sample names and occurrence designations. These files may be opened and edited in a text editor program, such as Notepad (PC) or BBEdit (Mac). The .vcf file can be loaded into the Stacks population program (Catchen and others, 2013) to calculate genetic diversity statistics, or loaded into R, using vcfR (Knaus and Grünwald, 2017), for further analysis. These data support the following publication:

    Access & Use Information

    Public: This dataset is intended for public access and use. License: No license information was provided. If this work was prepared by an officer or employee of the United States government as part of that person's official duties it is considered a U.S. Government Work.

    Downloads & Resources

    Dates

    Metadata Created Date June 1, 2023
    Metadata Updated Date July 6, 2024

    Metadata Source

    Harvested from DOI EDI

    Other Data Resources

    Additional Metadata

    Resource Type Dataset
    Metadata Created Date June 1, 2023
    Metadata Updated Date July 6, 2024
    Publisher U.S. Geological Survey
    Maintainer
    @Id http://datainventory.doi.gov/id/dataset/6215edc397eb10bfac7207fcda67a180
    Identifier USGS:605a3ba0d34e18948831d8ae
    Data Last Modified 20211223
    Category geospatial
    Public Access Level public
    Bureau Code 010:12
    Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
    Metadata Catalog ID https://datainventory.doi.gov/data.json
    Schema Version https://project-open-data.cio.gov/v1.1/schema
    Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
    Harvest Object Id 9aa0eb91-04de-4b93-bd0e-7598385909ec
    Harvest Source Id 52bfcc16-6e15-478f-809a-b1bc76f1aeda
    Harvest Source Title DOI EDI
    Metadata Type geospatial
    Old Spatial -122.37,37.71,-121.53,38.09
    Publisher Hierarchy White House > U.S. Department of the Interior > U.S. Geological Survey
    Source Datajson Identifier True
    Source Hash 24d89506aab163b77252c398453d635bc70c8ed4f85847b79739ccda17a9f09c
    Source Schema Version 1.1
    Spatial {"type": "Polygon", "coordinates": -122.37, 37.71, -122.37, 38.09, -121.53, 38.09, -121.53, 37.71, -122.37, 37.71}

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