Figbird/Config.json at main · SumitTarafder/Figbird · GitHub

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{
    "Directory":
    {
        "Draft_Genome": "Files/Data/Staph/Assembly/ABySS2/genome.scf.fasta",
        "Bowtie2": "bowtie2-2.2.3/",
        "Output_Folder": "Files/",
        "Reference_Genome": "Files/Data/Staph/Data/original/genome.fasta"
    },
    "Read_Pairs": [
		    {
		        "path_1": "Files/Data/Staph/Data/original/frag_1.fastq",
		        "path_2": "Files/Data/Staph/Data/original/frag_2.fastq",
		        "avg_insert_size": 180,
		        "is_reverse": 0,
                "max_read_length" : 101,
                "serial_num": 2,
                "num_itr_partial": 0,
                "num_itr_unmapped": 0,
                "order": [ "p", "u"]
		    },
		    {
                "path_1": "Files/Data/Staph/Data/original/Data/quakeCor/shortjump_1.fastq",
		        "path_2": "Files/Data/Staph/Data/original/Data/quakeCor/shortjump_2.fastq",
		        "avg_insert_size": 3500,
		        "is_reverse": 1,
                "max_read_length" : 37,
                "serial_num": 1,
                "num_itr_partial": 1,
                "num_itr_unmapped": 0,
                "order": [ "u", "p"]
            }
	  ],
    "Parameters":
    {
        "numthreads": 4,
        "evaluation" : 0,
        "default": 1,
        "gaplen_negative_overlap": 30,
        "trim_len": 10,
        "set_inputmean": 0
    }
}