# Generic Genome Browser, v2 (Cloud Image)

Welcome to the Generic Genome Browser (Cloud Image)!

## 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

## Starter Databases

A series of starter databases have been preconfigured for you, consisting of:

- S. cerevisiae genome (April 11, sacCer3), Genes and DNA only
- S. cerevisiae, Chromosomes 1+2, (more tracks)
- C. elegans genome (WS220, ce10), Genes and DNA only
- H. sapiens genome (hg19, GRCh37), Genes and DNA only

You may add additional starter genomes at any time by running the command line script gbrowse_import_ucsc.pl and providing the UCSC Genome Browser build name:

     gbrowse_import_ucsc.pl mm10 'M. musculus genome (mm10, GRCm38)'

## Directory Paths

For future reference, here is where you've installed GBrowse's various components:

GBrowse documentation, stylesheets and in-memory databases.
  $HTDOCS

GBrowse configuration files
  $CONF

Preinstalled sample database(s)
  $DATABASES

GBrowse CGI (web) scripts
  - $CGIBIN/gbrowse
  - $CGIBIN/gbrowse_img
  - $CGIBIN/gbrowse_details

Temporary directories for cached images and sessions.
  $TMP

## Learning More

To find out more about Gbrowse, try the:

- GBrowse 2.0 HOWTO
- GBrowse Tutorial

Last modified: Thu Mar 18 18:59:16 PDT 2010