From aec7f6caf92206f2e9e8fa7015755837eed0ea64 Mon Sep 17 00:00:00 2001 From: Katzlab Date: Tue, 1 Jul 2025 16:18:54 -0400 Subject: [PATCH] Update ColorByClade.py Changed to root on bacteria (Ba) and not prokaryotes (Ba, Za).... did not test --- Utilities/for_trees/ColorByClade.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/Utilities/for_trees/ColorByClade.py b/Utilities/for_trees/ColorByClade.py index eebd72c..a9ba99e 100644 --- a/Utilities/for_trees/ColorByClade.py +++ b/Utilities/for_trees/ColorByClade.py @@ -151,7 +151,7 @@ def reroot(tree): return best_clade #Get the biggest clade for each taxonomic group (stops once it finds one) - for taxon in [('Ba', 'Za'), ('Op'), ('Pl'), ('Am'), ('Ex'), ('Sr')]: + for taxon in [('Ba'), ('Za'), ('Op'), ('Pl'), ('Am'), ('Ex'), ('Sr')]: clade = get_best_clade(taxon) if len([leaf for leaf in clade if leaf.name[:2] in taxon]) > 3: