diff --git a/Snake.config.json b/Snake.config.json index 843a5367fc3b51b5d7c52223b5f45c17b577d6ee..e80de9e109e79ce8de9dee727846e6f69ef2eb9f 100644 --- a/Snake.config.json +++ b/Snake.config.json @@ -22,6 +22,7 @@ "bp_density" : { "few" : 0.1, "medium" : 0.25, + "more" : 0.33, "many" : 0.5 }, diff --git a/Snakefile b/Snakefile index 96ac5055917b619eb5cea30fb77595412be9076c..02cfa41bb40127c6bf87488e725436bcab155299 100644 --- a/Snakefile +++ b/Snakefile @@ -270,6 +270,8 @@ rule segmentation: shell: """ {params.mc_command} segment \ + -m 0.33 \ + -M 50000000 \ -o {output} \ {input} > {log} 2>&1 """ diff --git a/utils/chrom.R b/utils/chrom.R index bb4c8f5e9533c48b5068db509c49a01ce562efba..25d095c0bff4de205af948bf30c25e6a8bb70422 100644 --- a/utils/chrom.R +++ b/utils/chrom.R @@ -42,7 +42,7 @@ manual_colors = c( simul_false_del = "darkgrey", simul_inv_dup = "darkgoldenrod2", idup_h1 = muted("darkgoldenrod2", 80, 70), - idup_h2 = muted("darkgoldenrod2", 80, 70), + idup_h2 = muted("gold", 80, 70), complex = "darkorchid1", # background bg1 = "#ffffff",