Distance Matrix Builder

About

This program computes distance matrix for a set of aligned sequences. The input sequences are in FASTA format, the output matrix is in PHYLIP format. Please let me know if you'd like to see additional file formats supported.

This tool was made by Kirill Kryukov in Saitou lab, NIG. I share it with the hope that it can be useful, but without any warranties.

News

2013-02-25 – Version 0.1.1 has minor interface corrections.

2013-02-18 – This page is created, version 0.1.0 is uploaded.

Download

(Distributed under the zlib/libpng license, see the doc/license.txt file for details).

Usage

It's a command line program.

Usage: distance_matrix_builder <options>
Where <options> may include:
   -in <path>      - Specify file with input sequences (stdin if omitted)
   -out <path>     - Specify the output file name (stdout if omitted)
   -n-threads <N>  - Use N threads (cores) (1 by default).
   -help           - Pring help message.

When executed without parameters, it tries to read sequences from standard input and prints distances to standard output. This is useful for re-directing the data from/to other programs.

If you have any questions, comments or suggestions, please contact me.


  © 2013 Kirill Kryukov
This page is available under the CC BY 3.0 License