Some functions (like the neighborhood tree displayer) require you to still have the original IDs in there, and FigTree adds a quote to every ID which makes it very hard to figure out what is wrong if you don't know what you're looking for. I should just make a function to reroot the tree so we don't have to go through db_displayTree to do it (which replaces the gene IDs with annotations and organism names - good for displaying the tree, not so good for making a new tree for further analysis that interacts with the database).
Some functions (like the neighborhood tree displayer) require you to still have the original IDs in there, and FigTree adds a quote to every ID which makes it very hard to figure out what is wrong if you don't know what you're looking for. I should just make a function to reroot the tree so we don't have to go through db_displayTree to do it (which replaces the gene IDs with annotations and organism names - good for displaying the tree, not so good for making a new tree for further analysis that interacts with the database).