Hi all,
In the framework of GnpAnnot ( http://www.gnpannot.org/ ) Project
(project funded by INRA, CIRAD and the French National Research
Agency), we have setup a manual annotation system relying on a
roundtrip between Apollo, chado, Gbrowse. Apollo is directly
connected to Chado using the “pure JDBC" direct communication protocol.
This system has been set up for four genome community annotators: the
International Aphid Genome Consortium, the International Botrytis-
Sclerotinia genome project consortium, the Franco-Italian Tuber
genome project and the International Vitis genome consortium. We are
currently setting up new instance of the system in the framework of
the Franco-Australian Leptosphaeria maculans genome project.
Joelle
-----------------------------------------------------------------
Joelle Amselem
INRA - URGI/BIOGER
http://urgi.versailles.inra.fr/
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Le 3 oct. 09 à 02:19, cwilks a écrit :
We (TAIR) also use Apollo heavily for our genome annotation
efforts, despite the fact that our version has been branched (by
us) and is significantly behind the main code base.
Chris
----- Original Message ----- From: "Ed Lee" <[email protected]>
To: "Scott Cain" <[email protected]>
Cc: <[email protected]>; "Dave Clements, GMOD Help Desk"
<[email protected]>
Sent: Friday, October 02, 2009 12:11 PM
Subject: Re: [apollo] Who is using the Apollo?
Hi Daniel,
We did an informal survey of the user base about a year ago and to
add Scott's list:
* Howard Hughes Medical Institute SEA
* UGA
* Nasonia
* VectorBase
* Ensembl GeneBuild
* Hamilton College
There are some other groups that have shown interest in starting to
use Apollo, although I'm not sure whether or not they have done so.
Cheers,
Ed
On Fri, 2 Oct 2009, Scott Cain wrote:
Hi Daniel,
At a GMOD meeting a few years ago, the participants came up with
a list of
groups that we knew of that were using Apollo with Chado (there
are probably
other users, but we weren't interested in the for that list).
The ones we
came up with are here:
http://gmod.org/wiki/Apollo#Users
Scott
On Oct 2, 2009, at 3:19 PM, Dave Clements, GMOD Help Desk wrote:
Hi Daniel,
As far as I know, there is not a list of Apollo users anywhere.
People don't have to register to download and use it. Creating
a list
of GMOD users and what components they use is on my todo list,
but I
don't know when I'll get to it.
In the meantime, the best way to find out who is using it, may
be to
look at the archives for this list. Go to
http://mail.fruitfly.org/mailman/private/apollo/. You'll need your
email address and list password (which was mailed to you when you
joined the list.).
Dave C.
On Fri, Oct 2, 2009 at 6:50 AM, Daniel Xavier de Sousa
<[email protected]> wrote:
Hello,
I`m quite new here, and a would like to know who is using the
Apollo now?
I`m looking for a web system to run a medium genome project. I
hope to
process the pipeline: calling sequences, cleaning the vector,
clustering
and
annotation.
Thanks for all,
-Daniel Xavier de Sousa
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---
Scott Cain, Ph. D. scott at scottcain dot net
GMOD Coordinator (http://gmod.org/) 216-392-3087
Ontario Institute for Cancer Research
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