any way to make each layer of the tree equal width?

[tommyfuu]

Hi!

I wish to make a visualization for a distance-agnostic tree where each layer (equal depth or number of steps from the most-ancestral node) occupies the same amount of horizontal space. I am wondering if there's a way to do that in the current ete3 framework?

For example, with the following tree

demonstrate_tree = Tree( """
                      (\
                          (\
                             (AAAAAA, \
                             BBBBBB, \
                             CCCC, \
                             DDDDDDD)\
                        aaaa,\
                            (BCB, \
                            AVDCSA)\
                        bb)\
                      a,\
                      (CVS)\
                     abcd)\
                  cc;\
                    """, format=1
                 )

print(demonstrate_tree.get_ascii(show_internal=True))

We get:

          /-AAAAAA
         |
         |--BBBBBB
      /aaaa
     |   |--CCCC
     |   |
   /a|    \-DDDDDDD
  |  |
  |  |   /-BCB
-cc   \bb
  |      \-AVDCSA
  |
   \abcd-CVS

and this, when rendered, looks like this

You can notice that due to the differing lengths of the ancestral nodes, different layers occupy the same horizontal space. In our particular case, I want the node a and the node abcd to occupy the same horizontal space, potentially by making a a longer node. If there's a way to implement that, that will be great! Thanks!

[dengzq1234]

Hi, I image you used faces.add_face_to_node() method to render the above picture. In this method, you can use the argument position="branch-top" so the TextFace of your node name will show above the branch such as Here is I attached the code that I drew this image

from ete3 import Tree, TreeStyle, TextFace, faces t = Tree('(((AAAAAA:1,BBBBBB:1,CCCC:1,DDDDDDD:1)aaaa:1,(BCB:1,AVDCSA:1)bb:1)a:1,(CVS:1)abcd:1)cc:0;',format=1) ts = TreeStyle() ts.show_leaf_name = True ts.show_branch_length = False ts.show_branch_support = False def layout(node): if node.is_leaf(): pass else: if node.name: N = TextFace(node.name) faces.add_face_to_node(N, node, 0, position="branch-top") ts.layout_fn = layout t.render("mytree.png", w=183, units="mm", tree_style=ts)

Also we are now marching to ete4, as you may noticed in our main page of repo.

[tommyfuu]

hi,

thanks for your speedy response! in my actual tree that i am plotting i actually have some very long names. When I use the "branch-top" option, the tree visualizer nicely formed some dashed lines to add more space for the node name. However, this wiggle room enabled by the differing dash lines made the horizontal space occupied by nodes unequal again. Wondering if there are ways to fix that? thanks!

[tommyfuu]

kind of found a hard-coded way to do it!

ts = TreeStyle()
ts.show_leaf_name = True
ts.show_branch_length = False
ts.show_branch_support = False
def layout(node):
    if node.is_leaf():
        pass
    else:
        if node.name:
            # N = TextFace(node.name, tight_text=True)
            N = RectFace(width=300,height=20, fgcolor=None, bgcolor=None,
                                 label={"text":node.name, "fonttype":"Courier", "color":"black", "fontsize":10})
            faces.add_face_to_node(N, node, 0, position="branch-top")
ts.layout_fn = layout
test_tree.render("mytree.png", w=1920, units="px", tree_style=ts)