NAME

       prophecy - Create frequency matrix or profile from a multiple alignment

SYNOPSIS

       prophecy -sequence seqset -type list -datafile matrixf -name string -threshold integer
                -open float -extension float -outfile outfile

       prophecy -help

DESCRIPTION

       prophecy is a command line program from EMBOSS (“the European Molecular Biology Open
       Software Suite”). It is part of the "Nucleic:Profiles,Protein:Profiles" command group(s).

OPTIONS

   Input section
       -sequence seqset

       -type list
           Default value: F

       -datafile matrixf
           Default value: @($(type) = G: Epprofile H: EBLOSUM62 F: EBLOSUM62)

   Required section
       -name string
           Default value: mymatrix

   Profile type specific options
       -threshold integer
           Default value: 75

   Gap options
       -open float
           Default value: 3.0

       -extension float
           Default value: 0.3

   Output section
       -outfile outfile

BUGS

       Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or
       directly to the EMBOSS developers
       (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

SEE ALSO

       prophecy is fully documented via the tfm(1) system.

AUTHOR

       Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
           Wrote the script used to autogenerate this manual page.

COPYRIGHT

       This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package.
       It can be redistributed under the same terms as EMBOSS itself.