Can Nexus format tree replace NHX format tree?

DyogenIBENS / Agora

Algorithm For Gene Order Reconstruction in Ancestors

Other

70 stars 15 forks source link

Can Nexus format tree replace NHX format tree? #6

Open zhangzhiyangcs opened 2 years ago

zhangzhiyangcs commented 2 years ago

Thanks a lot for convenient tools. I have question about input gene tree. Can Nexus format tree replace NHX format tree? Or you have recommend methods transfrom Nexus format tree to NHX format tree.

DyogenIBENS commented 2 years ago

Hello, Unfortunately Agora is not able to process trees in NEXUS format, maybe treeio in R or ete3 in python are able to transform the format by tagging the characteristics of the nodes. I'm interesting in a suitable solution if you figure out one. best regards.

Caoyu819 commented 1 year ago

Hi,

Did you fixed the problem to transform the formation of tree file? i'm thinking about to get the gene trees in nhx format, from the newick format which i already have. Should i write a customized script to transform? Or does there already exist some tools or pipelines which can help to do the transformation?

Thanks in advance.

With best regards, Yu