tutorial_8017.json

{
  "Tutorial_8017.final_vcf_name": "/Users/shlee/Desktop/tutorial_8017/multisample",
  "Tutorial_8017.fastq_directory_path": "/Users/shlee/Desktop/tutorial_8017/",
  "Tutorial_8017.ref_alt": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.alt",
  "Tutorial_8017.ref_amb": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.amb",
  "Tutorial_8017.ref_ann": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.ann",
  "Tutorial_8017.ref_bwt": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.bwt",
  "Tutorial_8017.ref_pac": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.pac",
  "Tutorial_8017.ref_sa": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.sa",
  "Tutorial_8017.ref_dict": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.dict",
  "Tutorial_8017.input_FASTQ": [
	["/Users/shlee/Desktop/tutorial_8017/altalt.read1.fq" , "/Users/shlee/Desktop/tutorial_8017/altalt.read2.fq"],
	["/Users/shlee/Desktop/tutorial_8017/paalt.read1.fq" , "/Users/shlee/Desktop/tutorial_8017/paalt.read2.fq"],
	["/Users/shlee/Desktop/tutorial_8017/papa.read1.fq" , "/Users/shlee/Desktop/tutorial_8017/papa.read2.fq"]
  ],
  "Tutorial_8017.ref_fasta": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta",
  "Tutorial_8017.PICARD": "/Applications/genomicstools/picard/picard-tools-2.5.0/picard.jar",
  "Tutorial_8017.ref_index": "/Users/shlee/Desktop/tutorial_8017/hg38_mini_ref/chr19_chr19_KI270866v1_alt.fasta.fai",
  "Tutorial_8017.BWA0715": "/Applications/genomicstools/bwa/bwa-0.7.15/bwa",
  "Tutorial_8017.GATK": "/Applications/genomicstools/gatk/GenomeAnalysisTK-3.6/GenomeAnalysisTK.jar",
  "Tutorial_8017.min_unclipped_bases": "32",
  "Tutorial_8017.unmap_contaminant_reads": "false"
}