Login or Register to Ask a Question and Join Our Community

Linux and UNIX Man Pages

Linux & Unix Commands - Search Man Pages

tree-ppuzzle(1) [debian man page]

TREE-PPUZZLE(1) 					      General Commands Manual						   TREE-PPUZZLE(1)

NAME

       tree-ppuzzle - Reconstruction of phylogenetic trees by maximum likelihood (parallelized version)

SYNOPSIS

       tree-ppuzzle

DESCRIPTION

       This  manual  page  documents briefly the tree-ppuzzle command.	This manual page was written for the Debian GNU/Linux distribution because
       the original program does not have a manual page.

       TREE-PPUZZLE is the new name for the program previously known as PPUZZLE!

       tree-puzzle is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large
       data  sets and automatically assigns estimations of support to each internal branch. TREE-PPUZZLE also computes pairwise maximum likelihood
       distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the  clock-assumption.  In  addi-
       tion,  TREE-PPUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without comput-
       ing an overall tree and to visualize the phylogenetic content of a sequence alignment.

       This program is the paralelized version of tree-puzzle.

OPTIONS

       There are no options. For usage please look at /usr/share/doc/tree-puzzle/tree-puzzle.pdf.

SEE ALSO

       phylip(1), treetool(1).	tree-puzzle(1).

       This manual page was written by Dr. Guenter Bechly <gbechly@debian.org>, for the Debian GNU/Linux system (but may be used by others).

								  April 20, 2001						   TREE-PPUZZLE(1)

Check Out this Related Man Page

TORRUS_BUILDSEARCHDB(8) 					      torrus						   TORRUS_BUILDSEARCHDB(8)

NAME

       buildsearchdb - Build the search database

SYNOPSIS

       torrus buildsearchdb options...

DESCRIPTION

       This command indexes the Torrus configuration objects and builds the search index database. One of the three options --tree, --all or
       --global is required.

OPTIONS

       --tree=TREE
	   Build the indexes for a given tree.

       --all
	   Builds the tree indexes for all trees.

       --global
	   Builds the global index for all trees and also the tree indexes for every tree. In order to use the global search database, the web
	   user should have the permission to display all trees and also it should have the permission for GlobalSearch for all trees, for
	   example:

	      torrus acledit --addgroup=staff --permit=GlobalSearch --for='*'

       --verbose
	   Prints extra information

       --help
	   Displays a help message.

SEE ALSO

       torrus(8)

NOTES

       See more documentation at Torrus home page: http://torrus.org

AUTHOR

       Stanislav Sinyagin <ssinyagin@yahoo.com>

torrus 2.03							    2013-07-26						   TORRUS_BUILDSEARCHDB(8)
Man Page

7 More Discussions You Might Find Interesting

1. UNIX for Dummies Questions & Answers

Pro's and cons for Linux

Hi there thanks for checking in The I T manager over here wants us to convert 1 branch in our company from Win98 to Linux I would just like to know the types of problems that we will have once this is done. I would also like to know the following. Does Linux come with a Office package... (3 Replies)
Discussion started by: nemex
3 Replies

2. UNIX for Dummies Questions & Answers

tree command

In DOS, to get the complete directory structure, we use 'TREE' command.. can anyone tell me what is the equivalent command in Unix I am using SunOS ABC 5.8 Generic_117350-18 sun4u sparc SUNW,Sun-Fire-V240 thanks.. (1 Reply)
Discussion started by: wip_vasikaran
1 Replies

3. UNIX for Dummies Questions & Answers

Family tree illustrated

hello is there a family tree, or words that would illustrate the family tree of, Unix -> Linux As i would understand Unix, it is a OS. And Linux is a ?, is Linux a OS or a sub structure inside of the Unix OS ?. Have you ever seen one of those family tree`s where ma and pa are shown at... (3 Replies)
Discussion started by: cowLips
3 Replies

4. UNIX for Dummies Questions & Answers

encountered a command line argument to c program puzzle!

Hi, I hope this is the right place to post this: I have a cprogram written in openCV which reads a video file and does some processing: Here's a relevant code snippet: //just in case you needed to know what libraries I included #include<iostream> #include<opencv/cv.h>... (1 Reply)
Discussion started by: hackmanbsg
1 Replies

5. UNIX for Dummies Questions & Answers

Using tree to display only certain directories

I want to use tree to display the directory tree. It is easy to use tree -d -L 2 However I would like to run it on specific list of directories. Can such a thing be performed? Example: /media/academic-repo/chrisd/literature tree -d prose -L 2 prose ├── computer-technology... (1 Reply)
Discussion started by: kristinu
1 Replies

6. Red Hat

TreeView in RHEL 4

Hi, I have got a folder structure in Linux (RHEL 4) and want to get treeview of he same. I got the 'tree' command for getting the result but my Linux has not got tree command. I had downloaded the tree package and tried to install. It required some dependency packages like glibc. I tried to... (2 Replies)
Discussion started by: Pulkit Lall
2 Replies

7. Shell Programming and Scripting

Parsing of Newick tree format files

Dear all, I have >5000 files in newick tree format (which generally used for representing phylogenetic relationships) something like below. ... (3 Replies)
Discussion started by: ashmit99
3 Replies