params.json

{
  "project_folder" : "/nexus/posix0/MAGE-flaski/service/hpc/home/sjiang/nextflow-alternative_splicing/",
  "fastqc_raw_data" : "/nexus/posix0/MAGE-flaski/service/hpc/home/sjiang/nextflow-alternative_splicing/raw_data/",
  "genomes" : "/nexus/posix0/MAGE-flaski/service/projects/data/Bioinformatics/alternative_splicing/",
  "raw_renamed" : "/nexus/posix0/MAGE-flaski/service/hpc/home/sjiang/nextflow-alternative_splicing/raw_renamed/",
  "sample_sheet_xlsx" : "/nexus/posix0/MAGE-flaski/service/hpc/home/sjiang/nextflow-alternative_splicing/nf-star-test/sample_sheet.xlsx",
  "read1_sufix" : ".READ_1.fastq.gz",
  "read2_sufix" : ".READ_2.fastq.gz",
  "star_index" : "/nexus/posix0/MAGE-flaski/service/projects/data/Bioinformatics/alternative_splicing/caenorhabditis_elegans/111/toplevel_star_2.7.11b/",
  "star_output" : "/nexus/posix0/MAGE-flaski/service/hpc/home/sjiang/nextflow-alternative_splicing/star_output/",
  "sajr_output" : "/nexus/posix0/MAGE-flaski/service/hpc/home/sjiang/nextflow-alternative_splicing/sajr_output/",
  "organism" : "caenorhabditis_elegans",
  "release" : "111",
  "max_intron": "4500"
}