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Graphing and tabulating next-generation sequencing and genotyping data

Gilks, William


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{
  "description": "<p>Making figures and tables for publication. Each zip archive contains input data, shell script to initiate and log R script, one R script for generating several graphs and tables, and the output graphs and tables themselves.</p>\n\n<p>Data was generated by whole-genome resequencing of 22 individual D.melanogaster from Sussex-LHM population and 2 from the Sussex RG line, followed by read-mapping, then genotyping with Haplotype Caller and Genomestrip.</p>\n\n<p>Locations for raw data, code, logs, extended QC data:</p>\n\n<p>Sequence reads NCBI SRA268956</p>\n\n<p>NCBI dbSNP https://www.ncbi.nlm.nih.gov/projects/SNP/snp_viewBatch.cgi?sbid=1062461</p>\n\n<p>NCBI dbVar accession number pre-release nstd134</p>\n\n<p>\u00a0</p>\n\n<p>The pre-print manuscript for this data is available on biorxiv: \"Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample\" http://biorxiv.org/content/early/2016/10/17/081554 doi: http://dx.doi.org/10.1101/081554</p>\n\n<p>\u00a0</p>", 
  "license": "https://creativecommons.org/licenses/by/4.0/legalcode", 
  "creator": [
    {
      "affiliation": "University of Sussex", 
      "@type": "Person", 
      "name": "Gilks, William"
    }
  ], 
  "url": "https://zenodo.org/record/159282", 
  "datePublished": "2016-10-04", 
  "keywords": [
    "R", 
    "genomics", 
    "Drosophila"
  ], 
  "@context": "https://schema.org/", 
  "distribution": [
    {
      "contentUrl": "https://zenodo.org/api/files/fa410f68-08f9-494d-beb2-ec6c08f9443d/genomestrip_cnv_analysis.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/fa410f68-08f9-494d-beb2-ec6c08f9443d/haplotypeCaller_snp_analysis.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/fa410f68-08f9-494d-beb2-ec6c08f9443d/sequencing_quality_analysis.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }
  ], 
  "identifier": "https://doi.org/10.5281/zenodo.159282", 
  "@id": "https://doi.org/10.5281/zenodo.159282", 
  "@type": "Dataset", 
  "name": "Graphing and tabulating next-generation sequencing and genotyping data"
}
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