workflows/bulk_rnaseq_counts_qc/config/config.json

{
  "samples": {
    "WT_REP1": {
      "r1": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/testdata/GSE110004/SRR6357070_1.fastq.gz",
      "r2": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/testdata/GSE110004/SRR6357070_2.fastq.gz",
      "strandedness": "auto",
      "salmon_libtype": "A"
    },
    "WT_REP2": {
      "r1": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/testdata/GSE110004/SRR6357072_1.fastq.gz",
      "r2": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/testdata/GSE110004/SRR6357072_2.fastq.gz",
      "strandedness": "reverse",
      "salmon_libtype": "ISR"
    }
  },
  "references": {
    "genome_fasta": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/reference/genome.fasta",
    "annotation_gtf": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/reference/genes.gtf",
    "transcriptome_fasta": "https://raw.githubusercontent.com/nf-core/test-datasets/626c8fab639062eade4b10747e919341cbf9b41a/reference/transcriptome.fasta"
  },
  "salmon": {
    "kmer": 31
  },
  "threads": 4
}