Generic Genome Browser, v2
Welcome to the Generic Genome Browser!
Documentation
- Online tutorial and sample data files
- /var/www/gbrowse2/tutorial.
- Installation and configuration manual
- GBrowse 2.0 HOWTO
- Example scripts to control GBrowse from the command line
- /var/www/gbrowse2/example_scripts
Example Databases (requires gbrowse-data package)
Example in-memory databases from yeast chromosomes 1 and 2 have been
installed for you. Try them at these URL:
The "yeast_renderfarm" example will only work if a local gbrowse_slave
render slave daemon is running. To launch the daemon, run this command
as the root user:
% /etc/init.d/gbrowse-slave start
Alternative URLs
If you allowed the install process to adjust your Apache
configuration, you can use the alias /gb2 as an alternative to
/cgi-bin/gb2:
Accelerated Demos
By default, FastCGI and ModPerl are not set by gbrowse installation,
However, if you have FastCGI and/or ModPerl installed, you will have access to
accelerated versions of gbrowse a these URLs:
- mod_fcgid
- mod_fastcgi
- mod_perl
Directory Paths
For future reference, here is where you've installed GBrowse's various
components:
- GBrowse documentation, stylesheets and in-memory databases.
- /usr/share/gbrowse/htdocs
- GBrowse configuration files
- /etc/gbrowse
- Preinstalled sample database(s)
- /var/lib/gbrowse/databases
- GBrowse CGI (web) scripts
- /usr/lib/cgi-bin/gbrowse/gbrowse
- /usr/lib/cgi-bin/gbrowse/gbrowse_img
- /usr/lib/cgi-bin/gbrowse/gbrowse_details
- Temporary directories for cached images and sessions.
- /var/cache/gbrowse
Learning More
To find out more about Gbrowse, try the:
Lincoln D. Stein, lstein@cshl.org
Cold Spring Harbor Laboratory
Last modified: Thu Mar 18 18:59:16 PDT 2010