Hi everyone,
I'm quite new to biojava and to the mailinglist so I'm not sure if my
question has been answered before, although I did look into the older
mailinglist entries and found nothing...
Anyway, I'm writing a little java programn to align two protein sequences,
using the pam250 matrix. S
On Sat, Mar 16, 2002 at 01:21:38PM +0100, Andrey Zinovyev wrote:
>
> 2) Did somebody implement such methods as Principal components analysis
> (Singular value decomposition), Self-organizing maps?
Take a look at the Colt library:
http://tilde-hoschek.home.cern.ch/~hoschek/colt/
This includ
On Sat, 16 Mar 2002, Andrey Zinovyev wrote:
Hi,
> I have several questions:
>
> 1) I've read in the API about possibilities of organization of databases and
> accessing standart ones. I didnt understand exactly
> is there a way to extract automatically sequences from, say, GenBank. BTW,
If you
Hello,
I am new in this list.
I chosed BioJava to implement some web-application for visualization of data
in molecular biology.
As for datasources, I'm interested, first of all, in GenBank and EMBL
databases.
I have several questions:
1) I've read in the API about possibilities of organization
; -Original Message-
> From: Thomas Down [mailto:[EMAIL PROTECTED]]
> Sent: Tuesday, October 16, 2001 10:44 AM
> To: Ron Kuhn
> Cc: [EMAIL PROTECTED]
> Subject: Re: [Biojava-l] Questions
>
>
> On Tue, Oct 16, 2001 at 10:29:28AM -0400, Ron Kuhn wrote:
> > Is there a
To: Ron Kuhn <[EMAIL PROTECTED]>
cc: [EMAIL PROTECTED]
Subject: Re: [Biojava-l] Questions
On Tue, Oct 16, 2001 at 10:29:28AM -0400, Ron Kuhn wrote:
> Is there a forum related to the BIOJAVA software??? That is really where
I
> should be posting this email.
Yes, this mai
Is BioPerl more mature or do they have the same issues? Should I look
elsewhere or should I do my own parser?
Ron
-Original Message-
From: Thomas Down [mailto:[EMAIL PROTECTED]]
Sent: Tuesday, October 16, 2001 10:44 AM
To: Ron Kuhn
Cc: [EMAIL PROTECTED]
Subject: Re: [Biojava-l] Questions
On Tue, Oct 16, 2001 at 10:29:28AM -0400, Ron Kuhn wrote:
> Is there a forum related to the BIOJAVA software??? That is really where I
> should be posting this email.
Yes, this mailing list is where most discussion happens. Please
post any questions/bug reports/suggestions/patches here.
> I am
Is there a forum related to the BIOJAVA software??? That is really where I
should be posting this email.
I am trying to use your software to parse Genbank and SwissProt flat files.
I made 2 fixes (1 for each) and all seems to work fine. I am successfully
parsing the files and interpretting sequen
