介绍

下载

使用

批量的树文件处理,非常nice。
我在批量修改基因树 id 时,碰见过 bug,不过无伤大雅。

If you use the Newick Utilities for published work, please cite: T. Junier and E. M. Zdobnov. The Newick Utilities: High-throughput Phylogenetic tree Processing in the UNIX Shell. Bioinformatics, May 2010

nw_clade

Extracts subtrees specified by node labels

nw_condense

Condenses (simplifies) trees

nw_display

Shows trees as graphs (ASCII graphics or SVG)

nw_duration

Convert node ages into duration

nw_distance

Prints distances between nodes, in various ways

nw_ed

Stream editor (`a la sed or awk); see also nw luaed and nw sched

nw_gen

Random tree generator

nw_indent

Shows Newick in indented form

nw_labels

Prints node labels

nw_luaed

Like nw ed, but uses Lua

nw_match

Finds matches of a tree in another one

nw_order

Orders tree (preserving topology)

nw_prune

Removes branches based on labels

nw_rename

Changes node labels according to a mapping

nw_reroot

(Re)roots the tree

nw_sched

Like nw luaed, but uses Scheme

nw_stats

Prints tree statistics and properties

nw_support

Computes bootstrap support of a tree given replicate trees

nw_topology

Alters branch properties, preserving topology

nw_trim

rims a tree at a specified depth

参考

http://gensoft.pasteur.fr/docs/newick-utils/(进入可下载 PDF 介绍)
简书 | Mr_我爱读文献 | 系统发育树shell工具Newick Utilities