>RNATools has methods to translate DNA. Take a look at
>http://bioconf.otago.ac.nz/biojava/. I have put a number of example >scripts here
>that do what you want.
>
Thanks very much
But i am confused why not make
RNATools.translate(SymbolList syms)
into
RNATools.translate(SymbolList sysms, Tra
On Fri, 10 Jan 2003, Patrick McConnell wrote:
> In the process, I developed some useful and flexible base classes for
> formatting parameters and running programs. Parameters are automatically
> converted to an argument array via reflection and reading of standard out
> and standard error in sep
I would love to see this placed in the biojava core... Might switch me back from
bioperl ;-)
-Mat
> -Original Message-
> From: Patrick McConnell [mailto:[EMAIL PROTECTED]]
> Sent: Friday, January 10, 2003 3:12 PM
> To: [EMAIL PROTECTED]
> Subject: [Biojava-l] library for running blast
In the past, there have been quite a few requests on how to run blast from
a Java program. I have developed some classes for running NCBI blastall
and formatdb. All of the parameters for the respective programs are
implemented, and everything is reasonably well documented. Also useful is
an opt
Hi, there,
The three main DP operations are Forwards, Backwards and Viterbi. Forwards and
Backwards calculate the probability of the sequences having been made in any way by
the model. Viterbi finds the most supported way that the sequence could have been made.
I have seen the Dice example that
On Thu, Jan 09, 2003 at 11:52:01AM -0800, Ren, Zhen wrote:
> Hi,
>
> Symbols in an alphabet is not sorted in any way.
> How do I sort them, for instance, by name? Thanks.
Alphabets are, by design, pretty straigforward sets of symbol
objects. If you want to print them out in some specific order
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I am new to biojava.
How can i translate a dna with IUB character.
for example in standard genetic code map ,
CUU CUC CUA CUG all refers to L
so i want CUN refers to L
how can i achieve this under Symbl/Alphabit system.
Best regards
Yours
