Campylorhynchus brunneicapillus single nucleotide polymorphism genotype data from southern California, USA
This dataset contains 184 single nucleotide polymorphism (SNP) genotypes of Campylorhynchus brunneicapillus (Cactus Wren) sampled in southern California. Genomic markers were generated from ddRAD loci and analyzed using the Stacks v2.60 pipeline. The genotypes for all samples are provided in a VCF file with 40,707 independent loci. A companion sample data file is provided with sample names, location, and other data. 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 to calculate genetic diversity statistics, or loaded into R, using vcfR, for further analysis.
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Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[
"010:12"
]
|
| contactPoint |
{
"fn": "U.S. Geological Survey, Western Ecological Research Center",
"@type": "vcard:Contact",
"hasEmail": "mailto:gs-b-werc_data_management@usgs.gov"
}
|
| description | This dataset contains 184 single nucleotide polymorphism (SNP) genotypes of Campylorhynchus brunneicapillus (Cactus Wren) sampled in southern California. Genomic markers were generated from ddRAD loci and analyzed using the Stacks v2.60 pipeline. The genotypes for all samples are provided in a VCF file with 40,707 independent loci. A companion sample data file is provided with sample names, location, and other data. 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 to calculate genetic diversity statistics, or loaded into R, using vcfR, for further analysis. |
| distribution |
[
{
"@type": "dcat:Distribution",
"title": "Digital Data",
"format": "XML",
"accessURL": "https://doi.org/10.5066/P18WGRYU",
"mediaType": "application/http",
"description": "Landing page for access to the data"
},
{
"@type": "dcat:Distribution",
"title": "Original Metadata",
"format": "XML",
"mediaType": "text/xml",
"description": "The metadata original format",
"downloadURL": "https://data.usgs.gov/datacatalog/metadata/USGS.683dcb8fd4be0234870fc967.xml"
}
]
|
| identifier | http://datainventory.doi.gov/id/dataset/USGS_683dcb8fd4be0234870fc967 |
| keyword |
[
"Imperial",
"Kern",
"Los Angeles",
"Orange",
"Riverside",
"San Bernardino",
"San Diego",
"USGS:683dcb8fd4be0234870fc967",
"Ventura",
"biota",
"birds",
"genetic diversity",
"genetics",
"genotype",
"native species"
]
|
| modified | 2025-06-23T00:00:00Z |
| publisher |
{
"name": "U.S. Geological Survey",
"@type": "org:Organization"
}
|
| spatial | -119.0372, 32.5866, -115.0237, 35.6997 |
| theme |
[
"geospatial"
]
|
| title | Campylorhynchus brunneicapillus single nucleotide polymorphism genotype data from southern California, USA |
