{"id":22621082,"url":"https://github.com/pdimens/c.acronotus-data-2019","last_synced_at":"2025-10-18T10:31:29.771Z","repository":{"id":154347867,"uuid":"186519704","full_name":"pdimens/C.acronotus-data-2019","owner":"pdimens","description":"SNP dataset associated with Dimens et al. 2019 \"A genomic assessment of movement and gene flow around the South Florida vicariance zone in the migratory coastal blacknose shark, Carcharhinus acronotus\"","archived":false,"fork":false,"pushed_at":"2019-05-14T15:02:40.000Z","size":2524,"stargazers_count":1,"open_issues_count":0,"forks_count":1,"subscribers_count":1,"default_branch":"master","last_synced_at":"2024-12-08T22:17:42.925Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/pdimens.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2019-05-14T01:12:48.000Z","updated_at":"2020-02-09T13:17:56.000Z","dependencies_parsed_at":null,"dependency_job_id":"cf9aaeb0-bc0d-4d8c-9ebb-bf98ef362c6b","html_url":"https://github.com/pdimens/C.acronotus-data-2019","commit_stats":{"total_commits":12,"total_committers":1,"mean_commits":12.0,"dds":0.0,"last_synced_commit":"0891290197aa44a59041be8c6431b86a13dd4ba2"},"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pdimens%2FC.acronotus-data-2019","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pdimens%2FC.acronotus-data-2019/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pdimens%2FC.acronotus-data-2019/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pdimens%2FC.acronotus-data-2019/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/pdimens","download_url":"https://codeload.github.com/pdimens/C.acronotus-data-2019/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":236940497,"owners_count":19229153,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2024-12-08T22:17:39.661Z","updated_at":"2025-10-18T10:31:29.057Z","avatar_url":"https://github.com/pdimens.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"## SNP dataset associated with Dimens et al. 2019 \"A genomic assessment of movement and gene flow around the South Florida vicariance zone in the migratory coastal blacknose shark, Carcharhinus acronotus\"\n\n#### acro_assignment_allloci_stru_input\nInput used for Structure analysis\n\n#### acronotus_manuscript.gen\nThe final SNP dataset used in subsequent analyses\n\n#### acronotus_manuscript_nokey.gen\nSame as above, but omitting the individuals from the Florida Keys\n\n#### geneplot plotting.R\nR code used to generate Supplemental Figure 2\n\n#### geneplot results assignment.csv\nData used with the R code above to generate Supplemental Figure 2\n\n#### interactive_bokeh_figures.py\nPython code used to generate the interactive variant to Figure 2 (Structure plot)\n\n#### K means and DAPC.R\nR code used for K-means clustering and DAPC\n\n#### acronotus all metadata.txt\nCatch data associated with the individuals used in the study\n\n#### reference.individuals\nList of individuals used for reference assembly creation\n\n#### structure assignment results.txt\nFinal Structure results discussed in the manuscript\n\n#### TotalRawSNPs.vcf\nAvailable by request Please contact the Marine Genomics Lab PI David Portnoy at david.portnoy@tamucc.edu\n\n#### VCFfiltering_MASTER.xlsx\nExcel file describing VCF filtering schema\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpdimens%2Fc.acronotus-data-2019","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fpdimens%2Fc.acronotus-data-2019","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpdimens%2Fc.acronotus-data-2019/lists"}