[BiO BB] Java API for BLAST?
landman at scalableinformatics.com
Fri Dec 9 19:02:02 EST 2005
Ahmed Moustafa wrote:
> Hi Joe,
> I thought of switching my project to Perl because I found BioPerl had
> more functionalities and more "documentation" than BioJava but am trying
> first to stay with Java, otherwise will go to BioPerl.
My apologies about not being clearer. I am not suggesting a port to
Perl, just hooking in the previously developed modules through some sort
of inter-language call. In Perl it is fairly easy to do with the
Inline::* modules, and I believe it is fairly easy with Python and Java.
Thats it... not advocating re-inventing your program in a new
language, just using what might be available in another language that
> On 12/9/2005 9:45 AM, Joe Landman wrote:
>> Hi Ahmed:
>> You might look into hooking into the BioPerl bits from Java (RMI I
>> think). This shouldn't be too difficult.
>> Ahmed Moustafa wrote:
>>> Hi All!
>>> Is there some sort of a Java package to do BLAST search (remote or
>>> local)? I went through BioJava and I could not find something like
>>> that, it seemed there was only a parser for the BLAST XML output.
>>> Thanks in advance!
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Joseph Landman, Ph.D
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