Accessing BCO-DMO data
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BCO-DMO ERDDAP
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| griddap | Subset | tabledap | Make A Graph | wms | files | Accessible | Title | Summary | FGDC | ISO 19115 | Info | Background Info | RSS | Institution | Dataset ID | |
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| log in | [Individual genetic assignments from hatchery samples and restored reefs] - Oyster genetic assignment data from an experimental oyster reef restoration in Ninigret Pond, Rhode Island (USA) in 2017-2020 (CAREER: Linking genetic diversity, population density, and disease prevalence in seagrass and oyster ecosystems) | This dataset contains individual-level genetic cluster assignments for 619 eastern oysters (Crassostrea virginica, urn:lsid:marinespecies.org:taxname:140657) sampled as part of an experimental oyster reef restoration in Ninigret Pond, Rhode Island, USA. Oysters include 104 juvenile individuals from source hatchery-labeled samples collected prior to reef construction and 515 individuals sampled from 12 experimental restored reefs in fall 2018 and again in fall 2020. Juvenile oysters were sourced from four commercial hatcheries spanning a broad geographic range along the U.S. Atlantic coast (Maine, Massachusetts, New York, and Virginia). Each individual oyster was assigned to one of four genetic clusters identified using discriminant analysis of principal components (DAPC) and sparse non-negative matrix factorization (sNMF) applied to SNP genotype data. The dataset includes a primary genetic cluster assignment used in downstream analyses, as well as assignments generated from all combinations of the two analytical genetic assignment approaches and 12 SNP sets varying in filtering parameters (24 'assignment sets' in total). These additional assignments sets were included to assess both the consistency of genetic assignments as a whole and the robustness of downstream ecological inferences to certain upstream bioinformatic decisions (i.e., how we filtered the SNP data and generated individual genetic assignments).\n\ncdm_data_type = Other\nVARIABLES:\nind_id (unitless)\nsampling_group (unitless)\nyearcoll (unitless)\nreef (unitless)\nblock (unitless)\ngrower (unitless)\nhatcherysource_label (unitless)\ngrower_by_hatcherysource_label (unitless)\nlibrary (unitless)\nprimary_genetic_assignment (unitless)\ndapc_assigned_genetic_cluster_g90maf01_ldprunedrsq05 (unitless)\ndapc_assigned_genetic_cluster_g90maf01_g20f2020 (unitless)\n... (21 more variables)\n | BCO-DMO | bcodmo_dataset_1004242_v1 |