On Wed, Feb 13, 2002 at 10:21:14PM +, Tony Watkins wrote:
>
> (Warning - this email has been filtered through a bottle of shiraz
> cabernet! It's red and alcoholic and highly recommended for those
> pretending to be civilized. Ahem)
Thanks for all your work on this. With or without alcoho
I'm investigating the use of ClustalWAlignmentSAXParser within biojava and
am working to understand the prerequisites for using it. Must clustalw be
installed on the system running biojava? Is there any more documentation
available on ClustalWAlignmentSAXParser? I searched the wiki docs and
Hi Simon,
I've found a bug in the Blast2HTMLHandler code. In the hit summary
section that it produces, the score and expect values are shifted by 1
result. Thus, the first hit has the score & expect from the 2nd and so on.
I fixed it as follows (not sure if this is correct way, but it seems
More for the trunk .
Package org.biojava.bio.search
Interface SeqSimilaritySearcher
method search
(original)
db - the sequence database against which the similarity search will be
performed. May not be null otherwise an IllegalArgumentException is
thrown. Must also be an element of the set of
> Performs the standard "munge" (help) to handle ambiguity symbols. The
> actual weights for each *atomic* symbol should be calculated by the
> getWeightImpl functions
>
Looks like a perfectly valid example of munging to me :-)
munge /muhnj/ vt.
1. [derogatory] To imperfectly transform info
