Genome Explorer

John Innes Centre, Norwich Research Park,
Colney Lane, Norwich, NR4 7UH, UK.

Telephone: +44(0) 1603 450597 (direct)
+44(0) 1603 450000 (switchboard)
Fax: +44(0)1603 450595

Overview

Genome Explorer is 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.

• ncbi-blast
• clustalw
• several phylip programs
• chromtree
• treeview

It provides additional functionality for searching sequence data (for particular groups of nucleotides or amino acids) and editing multiple sequence alignments.

GENOME EXPLORER

Genome Explorer was developed for Windows and requires Java 1.4.1 and biojava-1.21.

Link to Intallation instructions.

SOFTWARE DOWNLOADS

defaultDirStructure.zip WinZip file - size 2kb genExp.inf Setup Information - size 3kb genExp.jar Executable jar file - 552kb genexp.zip WinZip file Genome Explorer executables - size 2.52Mb genExpDocs.zip WinZip file - size 29k genexp_javadocs.zip WinZip file - size 1,352kb quickstart.txt How to get up and running. Text File - size 1.94kb bioPrograms.zip Genome Explorer plus bioinformatics tools it links to - size 12.5Mb sample.zip WinZip file containing Sample Data - size 3.26Mb dianaTrial WinZip file containing dianaTrial - Trial worksheets and data sets - size 21.6Mb phyloTrial WinZip file containing phyloTrial - Trial worksheets and data sets - size 299Kb blastTrial WinZip file containing blastTrial - Trial worksheets and data sets - size 191Kb

REQUIRED DOWNLOADS

To download Java 1.4.1 - go to the download page and select a Windows JRE. To download ncbi-blast - go to the executables download page and select blastz.exe. To download biojava-1.21 - go to the binaries download page and select biojava-1.21.jar, xcerces.jar, bytecode-0.91.jar, and jakarta-regexp.jar. To download Treeview - go to the treeview hompage and select the Win32 version of treeview. To download Clustalw1.81 - go to the clustalw download site and select clustalw1.81.DOS.zip. To download phylip3.6a - go to the download page and select the windows executables (parts 1 and 2) and the documentation. To download Treeview - go to the treeview hompage and select the Win32 version of treeview.

Designed and maintained by Virginia Barnard
LAST UPDATED: 30th June 2006