NAME

       complex - Find the linguistic complexity in nucleotide sequences

SYNOPSIS

       complex -sequence seqall -lwin integer -step integer -jmin integer -jmax integer -omnia toggle
               -sim integer -freq boolean -print boolean -outfile outfile -ujtablefile outfile -outseq seqoutall

       complex -help

DESCRIPTION

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

OPTIONS

   Input section
       -sequence seqall

       -lwin integer
           Default value: 100

       -step integer
           Displacement of the window over the sequence Default value: 5

       -jmin integer
           Default value: 4

       -jmax integer
           Default value: 6

   Advanced section
       -omnia toggle
           Calculate over a set of sequences Default value: N

       -sim integer
           Calculate the linguistic complexity by comparison with a number of simulations having a uniform
           distribution of bases

       -freq boolean
           Execute the simulation of a sequence based on the base frequency of the original sequence Default
           value: N

   Output section
       -print boolean
           Generate a file named UjTable containing the values of Uj for each word j in the real sequence(s) and
           in any simulated sequences Default value: N

       -outfile outfile

       -ujtablefile outfile
           Default value: complex.ujtable

       -outseq seqoutall

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

       complex 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.

EMBOSS 6.4.0                                       05/11/2012                                        COMPLEX(1e)