diff --git a/Snake.config.json b/Snake.config.json index f0a8d93254bd4fea46bae7b68dc473793b5e3721..abae56bf2e84bbc955e2424e39219fb506c9e242 100644 --- a/Snake.config.json +++ b/Snake.config.json @@ -21,8 +21,8 @@ "bp_density" : { "few" : 0.1, - "medium" : 0.33, - "many" : 0.9 + "medium" : 0.25, + "many" : 0.5 }, "paired_end" : false, @@ -34,10 +34,10 @@ "100000" : 0.3, "500000" : 0.1, }, - "simulation_min_reads_per_library" : 250000, + "simulation_min_reads_per_library" : 500000, "simulation_max_reads_per_library" : 1000000, "simulation_window_sizes" : [50000, 100000], - "simulation_cell_count" : 200, + "simulation_cell_count" : 100, "simulation_alpha" : 0.02, "genome_size" : 3e9 diff --git a/Snakefile b/Snakefile index 8b357e9343da5496ab5b8bc1730a788d42063a9b..450db683c4b853530a3e0d08495b5cc2623a7c25 100644 --- a/Snakefile +++ b/Snakefile @@ -45,10 +45,10 @@ rule simulate_genome: log: "log/simulate_genome/genome{seed}.tsv" params: - svcount=200, - minsize=1000, - maxsize=2000000, - mindistance=1000000, + svcount = 200, + minsize = 100000, + maxsize = 5000000, + mindistance = 1000000, shell: "utils/simulate_SVs.R {wildcards.seed} {params.svcount} {params.minsize} {params.maxsize} {params.mindistance} {output.tsv} > {log} 2>&1"