{
  "dataset": "SRP009896 maize GBS inline barcode demultiplexing",
  "barcode_position": "5-prime / read start",
  "barcode_start": 1,
  "barcode_length": 0,
  "barcode_length_mode": "auto",
  "barcode_count": 48,
  "barcode_lengths": [
    4,
    5,
    6,
    7,
    8
  ],
  "barcode_filter_accessions": [
    "SRR391079"
  ],
  "barcode_rows_before_filter": 192,
  "barcode_rows_after_filter": 48,
  "barcode_filter_applied": true,
  "sources": [
    "https://biobam.atlassian.net/wiki/spaces/OED0324/pages/3525084904/Reads%2BDemultiplexing%2Bwith%2BCutadapt",
    "https://drive.google.com/file/d/1sxiF4ijqp9jHvFrPa3LWsnxtIHmA0rHJ/view?usp=sharing",
    "https://www.ebi.ac.uk/ena/browser/view/SRP009896"
  ],
  "runs": [
    {
      "accession": "SRR391079",
      "remote_fastq": "https://ftp.sra.ebi.ac.uk/vol1/fastq/SRR391/SRR391079/SRR391079.fastq.gz",
      "local_fastq": "examples/barcode_demux/data/SRR391079.subsample100000.fastq.gz",
      "subsample_records": 100000,
      "written_records": 100000,
      "local_md5": "fa00536806d8d2c43d6838bd895337a8",
      "local_bytes": 3581416,
      "ena": {
        "run_accession": "SRR391079",
        "fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR391/SRR391079/SRR391079.fastq.gz",
        "fastq_bytes": "657590862",
        "fastq_md5": "c8ce843ef209cd9007fbccfb4281be76",
        "read_count": "17930823",
        "base_count": "1542050778",
        "sample_alias": "plate_61VBPAAXX_1",
        "experiment_title": "Illumina Genome Analyzer IIx sequencing: GBS sequencing of NAM plate 61VBPAAXX_1",
        "study_accession": ""
      }
    }
  ],
  "barcodes": "examples/barcode_demux/data/barcodes.tsv",
  "barcode_source": "https://drive.google.com/file/d/1sxiF4ijqp9jHvFrPa3LWsnxtIHmA0rHJ/view?usp=sharing#BarcodesPerSample.csv",
  "barcode_md5": "63096194de13986381332b0dec3945f4",
  "barcodes_required_for_benchmark": false,
  "evidence_ready": true,
  "note": "ENA exposes FASTQ files for the SRP009896 runs. Provide --barcodes-file, --barcodes-url, or --use-public-example-barcodes to install the matching sample/barcode sheet before running comparative demux benchmarks. The public Cutadapt example links a Google Drive ExampleDataset.zip that includes the FASTQ files and barcode file; --use-public-example-barcodes extracts the first ZIP member barcode sheet with a ranged request instead of downloading the full archive. When a run-accession column is present, this script keeps only rows for the requested accession(s). SRP009896 reads include a leading N before the inline barcode."
}