Python Tree.length Exemples

Exemple #1

Fichier : phyloasr.py Projet : cxhernandez/asr-pipeline

def get_sum_of_branches(treepath):
    fin = open(treepath, "r")
    newick = fin.readline().strip()
    t = Tree()
    t.read_from_string(newick.__str__(), "newick")
    fin.close()
    return t.length()

Exemple #2

Fichier : compare_two_trees.py Projet : jiangchb/phylowidgets

import os
import sys
from dendropy import Tree

t1path = sys.argv[1]
t2path = sys.argv[2]

t1 = Tree()
t1.read_from_path(t1path, "newick")
t2 = Tree()
t2.read_from_path(t2path, "newick")

s = t1.symmetric_difference(t2)
s = t2.symmetric_difference(t1)
print "symmetric diff. = ", s

print t1.length()
print t2.length()

Exemple #3

Fichier : compare_two_trees.py Projet : vhsvhs/phylowidgets

import os
import sys
from dendropy import Tree

t1path = sys.argv[1]
t2path = sys.argv[2]

t1 = Tree()
t1.read_from_path(t1path, "newick")
t2 = Tree()
t2.read_from_path(t2path, "newick")


s = t1.symmetric_difference(t2)
s = t2.symmetric_difference(t1)
print "symmetric diff. = ", s

print t1.length()
print t2.length()

Exemple #4

Fichier : tools.py Projet : bkacar/asr-pipeline

def get_tree_length(path):
    """Input: path to newick tree. Returns the sum of branches on the tree."""
    t = Tree()
    t.read_from_path(path, "newick")
    return t.length()