Wise2.1.12 beta

Ewan Birney birney at sanger.ac.uk
Thu Oct 15 07:52:56 EST 1998

	Wise 2.1.12 Beta

Wise2.1.12 beta is a beta release of the Wise2 package. This package
specialises in the comparions of a DNA sequence at the level of its
conceptual translation. In the case of genomic DNA a complete gene
prediction algorithm is merged with a protein alignment algorithm in
genewise. In the case of EST/cDNA DNA, the ability to find frameshifts
errors in the DNA sequence is merged with a protein alignment algorithm.

The package can compare either protein sequences or profile-HMMs (made
by the HMMER package) to DNA sequences. The algorithms can be run
in one-on-one modes or database searching modes. In the database search,
a profile-HMM database can be used, such as those produced by Pfam. 

The source code can be downloaded by anonymous ftp from


in wise2.1.12.tar.gz

or in binary format as


More information on Wise2, including web forms to try the algorithms
out can be found at


The functionality of the programs can be accessed via a Perl port to
the package, or a C API. Contact birney at sanger.ac.uk for more
information or read the web site


Ewan Birney
<birney at sanger.ac.uk>

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