Dear colleagues,
I'd like to introduce you our Java based WWW-Genome tool, JMGD.
You can see examples (Haemophilus influenzae,
Mycoplasma genitalium, Methanococcus jannaschii) in
http://www.kazusa.or.jp/jmgd/
Source codes are available.
============================================================================
JMGD:Java-based User Interface to the Microbial Genome Database
============================================================================
As the rate of progress in the determination of the whole genome
sequencing of microbial organisms increases, we will need to have
efficient, ready-to-use tools to publicize the data through WWW as
soon as we finish the work. Java-based user interface to the microbial
genome database (JMGD) can be used for almost any kind of circular
microbial organisms. We use JMGD for the genome sequencing of
cyanobacterium we published recently
(http://www.kazusa.or.jp/cyanobase/map/java/cmap_small/cmap_sm.html).
Java-based highlight-image techniques that were originally developed
y Jim Graham(Sun Microsystem) are used in JMGD. JMGD includes all the Java
source codes, perl scripts and the cgi scripts that are also used to blink
the selected ORFs. The platform-independent aspect of Java makes it
easily implemented in any machines used such as UNIX
workstations, Macintosh or Windows computers.
JMGD has been developed under Sybase, but any other database management
systems can be applied to without substantial modifications.
JMGD is available from:
ftp://ftp.kazusa.or.jp/pub/JMGD/http://www.kazusa.or.jp/jmgd/
0. Prerequisites:
* software
perl 5.003 or later
JDK 1.02 (1.1 is not supported in the current release)
sybperl 2.06 or later (http://www.perl.com/perl/CPAN/authors/id/MEWP)
* OS
Solaris 2.5 or later
OSF1 3.2 or later
* DBMS (Database Management System)
SQL Server 10/11 or any other DBMSs can be used.
-----------------------------------------------
Nobuyuki Miyajima
Kazusa DNA Research Institute
Department of Genome Informatics,
Chief Researcher
1532-3 Yana, Kisarazu, Chiba 292, Japan
TEL: +81-438-52-3917 FAX: +81-438-52-3918
E-mail: miyajima at kazusa.or.jp
