SISSI: Simulating Sequence Evolution with Site-Specific Interactions

Introduction:

SISSI is a software tool to generate data of related sequences along a given phylogeny, taking into account user defined system of neighbourhoods and instantaneous rate matrices.

Reference:

The method is described in detail:

• Tanja Gesell and Arndt von Haeseler: In silico sequence evolution with site-specific interactions along phylogenetic trees, Phylogenetic Trees. Bioinformatics, 22:716-722, 2006. 10.1093/bioinformatics/bti812,

Download Version 1.0:

A new user manual is available in PDF and HTML format.
Source package and sequential binary releases for Linux, MacOS and Windows are available in gzipped TAR format and ZIP format..

Type	Links		Notes
User manual	sissi-manual.pdf sissi-manual.html
Source code	sissi-1.0.tgz sissi-1.0.zip
Linux binary release	sissi-1.0-linux.tgz sissi-1.0-linux.zip		64-bit, statically linked, g++ 4.0.2
MacOS binary release	sissi-1.0-mac.tgz sissi-1.0-mac.zip		32-bit, dynamically linked, g++ 4.0.1
Windows binary release	sissi-1.0-win.tar.gz sissi-1.0-win.zip		32-bit, statically linked, Visual C++ 6

Note:

• The neighbourhood is a user-defined system and must be generated by yourself. For more information how to generate neighbourhoodsystems, please read in the manual or contact tanja@cs.uni-duesseldorf.de
  
• In addition some efficient variants limited to special neighbourhood systems are available on request or might be implemented by the authors.
  
• If you download this program, please let us know by sending an email to sissi@cs.uni-duesseldorf.de
  
• Comments and Bug Reports are very wellcome to further improve the program!