Gibbs Laboratories - Public Programs

Welcome to the Gibbs Laboratories Public Programs repository. Here you will find the downloadable executable versions of the public programs written by members of the Gibbs Laboratories.

All binary executables are in DOS format for use under Microsoft DOS or Windows. Please contact us for Unix versions.

DnDscan

Assess the variability in sets of aligned sequences by calculating the percentage mean pairwise difference inside a sliding window.

Program description page
Program file - DNDSCAN.EXE
Documentation - DNDSCAN.PDF - in Portable Document Format
Zip file - DNDSCAN.ZIP - containing test data and the MDM78, Blosum35 and Blosum80 matrices.
To access the online version of DnDscan on this server go to the Janus system.

Lu-Tze

Lu-Tze, the ancient History Monk from Terry Pratchett's Diskworld stories. He will look through the history of a segment of your aligned sequences and report on the changes over time (which is presumed to be the order in which the sequences are supplied in the file).

Program description page
To access the online version of Lu Tze on this server go to the Janus system.

Patristic

A program for calculating patristic distances and graphically comparing the components of genetic change

Program description page (hosted on bioinformatics.org)

Virusbanker

VirusBanker is a searchable and editable database for organising families of viruses.

Run virusbanker with Bunyaviridae (Java web start)
Run virusbanker with Circoviridae (Java web start)
Run virusbanker with Potyviridae (Java web start)
Program description page
Program file - virusbanker.zip
Documentation - virusbanker-help.doc

NCSF

The Nucleotide Conserved Site Finder; used in the process of primer design.

Program description page

While we make every effort to provide binaries fresh from the compiler, we recommend use of appropriate virus detection and control software to prevent any unwanted problems that other people might introduce.

Online versions

If you want to use any of these programs through the Internet, they are available through a web front end at the JANUS front page. Documentation for the JANUS system is available here.

Page last updated 27th November 2007

Gibbs Lab - Public Programs