From d6474e390189c9f5f554c555c1ce73240bea3656 Mon Sep 17 00:00:00 2001 From: gordonkoehn Date: Mon, 4 Sep 2023 14:59:13 +0200 Subject: [PATCH] fresh start maro1 --- workflows/mark01.smk | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/workflows/mark01.smk b/workflows/mark01.smk index 39e43385..4f696620 100644 --- a/workflows/mark01.smk +++ b/workflows/mark01.smk @@ -11,18 +11,18 @@ from pyggdrasil.tree_inference import CellSimulationId, TreeType, TreeId ################################################################################ # Environment variables -#DATADIR = "/cluster/work/bewi/members/gkoehn/data" -DATADIR = "../data" +DATADIR = "/cluster/work/bewi/members/gkoehn/data" +#DATADIR = "../data" ##################### experiment="mark01" # Metrics: Distances / Similarity Measure to use -metrics = ["MP3","AD","DL"] # <-- configure distances here +metrics = ["AD","DL"] # <-- configure distances here ##################### # Cell Simulation Parameters -num_samples = 30 # <-- configure number of samples here +num_samples = 200 # <-- configure number of samples here # Errors <--- set the error rates here selected_error_cond = ['IDEAL', 'TYPICAL', 'LARGE'] @@ -34,7 +34,7 @@ errors = { name: all_error_cond[name] for name in selected_error_cond } -n_mutations = [30] #5, 10, 50] # <-- configure number of mutations here +n_mutations = [5, 10, 30, 50] # <-- configure number of mutations here n_cells = [200, 1000] #, 5000] # <-- configure number of cells here # Homozygous mutations [f: False / t: True] @@ -46,7 +46,7 @@ cell_attachment_strategy = "UXR" # <-- configure cell attachment strategy here ##################### # True Tree Parameters tree_types = ["r"]#, "s"] # <-- configure tree type here ["r","s","d"] -tree_seeds = [42,]# 34] # <-- configure tree seed here +tree_seeds = [42, 34] # <-- configure tree seed here ##################### # Auxiliary variables