Address:
Department of Computational and Systems Biology,
John Innes Centre, Norwich Research Park,
Colney, Norwich, NR4 7UH, UK.

Telephone:
+44(0) 1603 450597 (direct)
+44(0) 1603 450000 (switchboard)

Fax:
+44(0) 1603 450595 (direct)
+44(0) 1603 450045 (JIC reception)

SOFTWARE PROJECTS

One of the group's main activities is to develop reusable software for genomic research. From these pages you may/can download the most recent versions of software currently being developed by the group. These pages are intended for users who wish to download and use our software. Please look at the information associated with each project page for details on how to set-up and run the software.


Project Description Status
ARCADE A Real Time Comparative Analysis Display Environment. Performs comparative queries over two or more distributed and potentially heterogeneous databases. Version 0.1-beta
CGHdist Calculates a matrix of maximum likelihood-based distances from gene content derived from Comparative Genome Hydridisation microarrays Version 1.0
CHROMTREE A software package for the phylogenetic analysis of gene content and order data Currently unavailable
CrazyMapper CrazyMapper is a computational tool for the visualisation, estimation and validation of genetic linkage maps To be released as THREaDMapper in summer 2009
Genome Explorer A Java front end to many useful bioinformatics tools. It provides a single interface from which these tools can be accessed and automates a lot of 'behind-the-scenes' processes. It is provided as an executable jar file. Version 1.0b
Genome Map Viewer Compares two or more genomes and displays them in a circular form Version 1.0c-beta
Grid Map Displays comparative genome mapping data in a grid format Version 3.0a-beta
MPP Microarray-to-Phylogeny-Pipeline. Predicts gene or marker content from Comparative Genome Hybridisation or Tagged Microarray Marker experiments, and uses CGHdist (see above) and JSplits to deduce a phylogeny Version 2.0
mswordtree MS Word macro for the drawing of Newick (New Hampshire) format phylogenetic trees Version 1.0
newicktree LaTeX package for the drawing of Newick (New Hampshire) format phylogenetic trees Version 1.1
RAT Recombination Analysis Tool for high throughput analysis of genomic sequence Version 1.0
THREaDMapper THREaDMapper is a computational tool for the visualisation, estimation and validation of genetic linkage maps To be released in summer 2009

Designed by Virginia Barnard
LAST UPDATED: 15th July 2009