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Snake.config.json
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Snake.config.json
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{
"chromosomes" : ["chr1","chr2","chr3","chr4","chr5","chr6","chr7","chr8","chr9","chr10","chr11","chr12","chr13","chr14","chr15","chr16","chr17","chr18","chr19","chr20","chr21","chr22","chrX"],
"mosaicatcher" : "/opt/dev/strandseqnation/mosaicatcher/build/mosaic",
"bp_density" : {
"fraction10" : 0.10,
"fraction20" : 0.20,
"fraction30" : 0.30,
"fraction40" : 0.40,
"fraction50" : 0.50,
"fraction60" : 0.60,
"fraction70" : 0.70,
"fraction100" : 1
},
"simulation_neg_binom_p" : {
"50000" : 0.6,
"100000" : 0.5,
"500000" : 0.4
},
"simulation_min_reads_per_library" : 300000,
"simulation_max_reads_per_library" : 500000,
"simulation_alpha" : 0.08,
"num_SVs_per_genome" : 25,
"genome_size" : 3e9,
"num_cells" : 200,
"seeds" : [1],
"window_sizes" : 100000,
"size_ranges" : ["200000-500000", "500000-1000000", "1000000-2000000", "2000000-5000000"],
"vaf_ranges" : ["0.5-1", "1-3", "3-5","5-10","10-20","20-40","40-60","95-100"],
"sv_classes" : ["het_del","het_inv","het_dup"]
}