您可以使用一些简单的Python从CSV构建树，然后将其写到Newick树中。不确定这是否是您要尝试的操作。
import csvfrom collections import defaultdictfrom pprint import pprintdef tree(): return defaultdict(tree)def tree_add(t, path): for node in path: t = t[node]def pprint_tree(tree_instance): def dicts(t): return {k: dicts(t[k]) for k in t} pprint(dicts(tree_instance))def csv_to_tree(input): t = tree() for row in csv.reader(input, quotechar='''): tree_add(t, row) return tdef tree_to_newick(root): items = [] for k in root.iterkeys(): s = '' if len(root[k].keys()) > 0: sub_tree = tree_to_newick(root[k]) if sub_tree != '': s += '(' + sub_tree + ')' s += k items.append(s) return ','.join(items)def csv_to_weightless_newick(input): t = csv_to_tree(input) #pprint_tree(t) return tree_to_newick(t)if __name__ == '__main__': # see https://docs.python.org/2/library/csv.html to read CSV file input = [ "'Phylum','Class','Order','Family','Genus','Species','Subspecies','unique_gi'", "'Phylum','Class','Order','example'", "'Another','Test'", ] print csv_to_weightless_newick(input)输出示例：
$ python ~/tmp/newick_tree.py(((example,((((unique_gi)Subspecies)Species)Genus)Family)Order)Class)Phylum,(Test)Another
- 另外，该库看起来很酷，可以让您形象地看待树木：http
- //biopython.org/wiki/Phylo
