[Bionews] MView 1.49 released

Nigel Brown nigel.brown at unibas.ch
Mon Dec 19 13:12:20 EST 2005


MView, release 1.49

     http://bio-mview.sourceforge.net

MView is a tool for converting the results of a sequence database search 
into the form of a multiple alignment of hits stacked against the query. 
Existing multiple alignments can be post-processed in the same way. A 
typical application is the generation of a coloured Web page from a 
BLAST or FASTA search complete with scoring information, or from a 
CLUSTAL alignment allowing quick assessment in a Web browser in terms of 
sequence conservation patterns. It can also be used as a format converter.

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Changes in this release include:

    o relocation to SourceForge
    o change to GPL license

For other changes since the last release, see the CHANGES file in the 
distribution.

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MView allows filtering of the input by score, e-value thresholds, 
psi-blast search cycle, etc., provides a choice of colouring schemes and 
palettes for protein or nucleotide sequences, and can generate consensus 
patterns.

Currently recognised input formats include:

   NCBI BLAST (2.0 series)
      blastp, blastn, blastx, tblastn, tblastx, psi-blast

   NCBI BLAST (1.4 series)
      blastp, blastn, blastx, tblastn, tblastx

   WashU BLAST2 (2.0)
      blastp, blastn, blastx, tblastn, tblastx

   FASTA (3.0 series)
      fasta3, tfastx3

   FASTA (2.0 series)
      fasta, tfastx

   MaxHom/HSSP

   Pearson/fasta, PIR, MSF, CLUSTAL

Alternative output formats are also supported: plain text, 
Pearson.fasta, PIR, and MSF, for export to other programs. See the Web 
page for the most recent information.

This software requires Perl (version 5) and runs on UNIX/Linux systems.

See: http://bio-mview.sourceforge.net

for details and instructions, and also the article:

Brown, N.P., Leroy C., Sander C. (1998). MView: A Web compatible 
database search or multiple alignment viewer. Bioinformatics. 14(4):380-381.

--
Nigel Brown



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