eager/conf/igenomes.config at 7ea27907b67153ff7308e5f32c17c4e750f55ae0 · maxibor/eager · GitHub

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/*
 * -------------------------------------------------
 *  Nextflow config file for iGenomes paths
 * -------------------------------------------------
 * Defines reference genomes, using iGenome paths
 * Can be used by any config that customises the base
 * path using $params.igenomes_base / --igenomes_base
 */

params {
  // illumina iGenomes reference file paths
  genomes {
    'GRCh37' {
      fasta   = "${params.igenomes_base}/Homo_sapiens/Ensembl/GRCh37/Sequence/WholeGenomeFasta/genome.fa"
      bwaindex = "${params.igenomes_base}/Homo_sapiens/Ensembl/GRCh37/Sequence/BWAIndex"
    }
    'GRCm38' {
      fasta   = "${params.igenomes_base}/Mus_musculus/Ensembl/GRCm38/Sequence/WholeGenomeFasta/genome.fa"
      bwaindex   = "${params.igenomes_base}/Mus_musculus/Ensembl/GRCm38/Sequence/BWAIndex"
    }
  }
}