Entering edit mode
3.8 years ago
fhsantanna
▴
620
I have the following nexus tree:
#nexus
begin trees;
tree one = (Argentina/C97133/2020[&clade_membership=20B,num_date=2020.886612021858,num_date_CI={2020.886612021858,2020.886612021858},pangolin_lineage=P.2,localidade=South America,division=Argentina,country=Argentina,region=South America,host=Human,age=49,sex=Male,recency=Older,division_exposure=Argentina,region_exposure=South America,subclade_membership=20B/S.484K,div=23]:0.022244654877567882,(Brazil/AM-21143316HC/2021[&clade_membership=20B,num_date=2021.009589041096,num_date_CI={2021.009589041096,2021.009589041096},pangolin_lineage=P.2,localidade=Brazil,location=Manaus,division=Amazonas BR,country=Brazil,region=South America,host=Human,age=35,sex=Male,recency=One week ago,division_exposure=Amazonas BR,region_exposure=South America,subclade_membership=20B/S.484K,div=23]:0.06563654070760094,Brazil/AM-L87-CD2680/2020[&clade_membership=20B,num_date=2020.9767759562842,num_date_CI={2020.9767759562842,2020.9767759562842},pangolin_lineage=B.1.1.28,localidade=Brazil,location=Manaus,division=Amazonas BR,country=Brazil,region=South America,host=Human,recency=One week ago,division_exposure=Amazonas BR,region_exposure=South America,subclade_membership=20B/S.484K,div=23]:0.03282345589582292)NODE_0004335[&clade_membership=20B,num_date=2020.9439525003884,num_date_CI={2020.7799157869863,2020.9690196954846},localidade=Brazil,subclade_membership=20B/S.484K,div=22]:0.0795851334080453)NODE_0002344[&clade_membership=20B,num_date=2020.8643673669803,num_date_CI={2020.784333364771,2020.886612021858},localidade=Brazil,subclade_membership=20B/S.484K,div=22]:0;
end;
I want to draw a tree using R or python as the following picture: https://ibb.co/YZcnvc9
I read it using ggtree, but I was not able to color the internal branches using the "ancestral" data of "localidade". Could you help me to automatically color the internal branches using this data? Thank you.