getTaxonomy {OmaDB} | R Documentation |
The function to obtain the taxonomic tree from the database in the newick format that can be plugged into phylo.io for visualisation.
getTaxonomy(root = NULL, members = NULL, newick = TRUE)
root |
optional parameter, the root of the node of interest |
members |
optional parameter, list of member ncbi taxon or UniProt IDs that should be included in the induced taxonomy. |
newick |
optional parameter, boolean default set to TRUE |
an object containing the JSON keys as attributes
getTaxonomy() getTaxonomy(members='YEAST,ASHGO') getTaxonomy(root='Alveolata')