Servers Overview

The "SEED Servers" offer access to the infrastructure built to support
the SEED Project.  The servers offer access to an integration of
the genomic data from a large and growing set of sequenced genomes.
They also offer  the ability to annotate newly-sequenced
prokaryotic genomes, to download the FIGfams, or to access the latest
accumulated set of encoded subsystems.  By constructing these servers
we hope to enable research groups from around the world by providing a
resource they can build upon.

For more detailed discussions, please see


To get started, you will need to download a small installation package
from our server and install our "clent-side" software to suppport
accessing our servers via the network.  Exactly how to do this depends
on what computational environment you use.  We offer instructions at
at the SEED web site ( You should be able to
find the link "Network-based SEED API".  Click on it, and you should
arrive at a table of contents describing the entire project.  Go to
"Distribution of the SEED server packages" and you will have a
detailed description of how to install the required software on your
machine.  You may need to be walked carefully through the process.  If
you would like a step-by-step description, we recommend using the
discussion at ""Accessing the SEED servers: Getting started"".

Once you get your environment set up, you can start using the servers.
We are offering two types of access:

   1.  For users that simply wish to annotate a new genome, build
       a metabolic reconstruction, or use our metabolic models, we
       have constructed a set of command-line tools.  This tool set is
       fairly rich already, but it is growing rapidly (URL to

   2.  For users that wish programmatic access to our tools and data,
       we encourage you to learn and use the API described at 

We offer 2-day tutorials on how to get started.  Thse are normally
held at Argonne National Laboratory once every 3-4 months.  These will
walk you through the installation, show you the commands to create
initial annotations for a newly-sequenced genome, how to access a set
of annotations from numerous sources, and to access the SEED database.
Please contact via email to get the latest
information on coming tutorials.