R help - Nov 2007 - looking for packages that visualize nucleotide sequence properties

Hi there,

I am looking for R-packages that can help me visualize properties on
nucleotide sequences. I want to display sequences in the 1-100K base range
as lines and plot features above and below those lines. 

Any ideas would be welcome.

Thanks,

Bernd

Hi Jim,

I don't have an explicit example. But, most genome browsers have something
similar and much more sophisticated than what I am looking for: e.g.
http://www.ensembl.org/Homo_sapiens/contigview?seq_region_right=158821424&se
q_region_name=7&click_right=490&click_left=40&seq_region_left=1&seq_region_w
idth=100000&vclick.x=20&vclick.y=131
The problem I have with these representations is that they are all about ONE
gene/region. I want to be able to see less information but for multiple
genes. I haven't seen this for any of the data bases.

Thanks for your kind help.

Bernd

|-----Original Message-----
|From: Jim Lemon [mailto:jim at bitwrit.com.au]
|Sent: Tuesday, November 27, 2007 5:30 AM
|To: Bernd Jagla
|Subject: Re: [R] looking for packages that visualize nucleotide sequence
|properties
|
|Bernd Jagla wrote:
|> Hi there,
|>
|> I am looking for R-packages that can help me visualize properties on
|> nucleotide sequences. I want to display sequences in the 1-100K base
|range
|> as lines and plot features above and below those lines.
|>
|> Any ideas would be welcome.
|>
|Is there an example of what you want that we could view?
|
|Jim