def branchOut(self, centerTaxon, subsetSize, **kwargs):
dist = {}
pdm = treecalc.PatristicDistanceMatrix(self.den_tree)
for i, s in enumerate(self.den_tree.taxon_set): # @UnusedVariable
if "filterTaxon" in kwargs:
if not kwargs["filterTaxon"](s):
continue
dist[s.label] = pdm(centerTaxon, s)
incircle = sortByValue(dist)[0:subsetSize]
return [node[0] for node in incircle]
def branchOut(self,centerTaxon,subsetSize,**kwargs):
dist = {}
pdm = treecalc.PatristicDistanceMatrix(self.den_tree)
for i , s in enumerate(self.den_tree.taxon_set): #@UnusedVariable
if kwargs.has_key("filterTaxon"):
if not kwargs["filterTaxon"](s):
continue;
dist [s.label] = pdm(centerTaxon, s);
incircle = sortByValue(dist)[0:subsetSize]
return [node[0] for node in incircle]