|
Hi, Yannick!
I had this problem some time ago and I have
programmed a tool for it:
It works like this:
Blast your sequences against your favorite genome.
Make blast give you a "Hit table". Copy this Hit table into the tool and you
will receive an EMBL file which you can use to load into artemis together with
your genome sequence.
I used this to visualize possible hybridization
regions of oligos.
Bye,
Michael.
----- Original Message -----
Sent: Tuesday, January 03, 2006 2:31
PM
Subject: [Artemis-users] Viewing Tblastx
database annotation
Dear list,
I have a set of EST sequences which I have tblastx-ed against my favorite
genome. Now I would like to view the genome sequence in Artemis, with my EST
hits as annotation.
After some struggles, I have managed to do the reverse with Artemis 7 on
my Mac: load an EST sequence (fasta format) and see where the genome hits (by
loading my EST vs. genome tblastx -m8 file)
Is there any way of using artemis to do what I have in mind? The reason
is that I basically need to manually go through my blast results, to see how
large the corresponding genome ORF might be.
Any other suggestions?
Thanks a bunch for your help,
Yannick
__________________________________
Department of Ecology and
Evolution
#3106,
Biophore, Universite de Lausanne
1015
Lausanne, Switzerland
land:
+41.21.692.4182 fax: +41.21.692.4165
cell:
+41.78.87.87.001
_______________________________________________
Artemis-users
mailing
list
[email protected]
http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
|
_______________________________________________
Artemis-users mailing list
[email protected]
http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
