NAME

       pepnet - Draw a helical net for a protein sequence

SYNOPSIS

       pepnet -sequence sequence -amphipathic toggle -squares string -diamonds string -octags string
              -graph graph

       pepnet -help

DESCRIPTION

       pepnet is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It
       is part of the "Display,Protein:2D Structure" command group(s).

OPTIONS

   Input section
       -sequence sequence

   Output section
       -amphipathic toggle
           If this is true then the residues ACFGILMVWY are marked as squares and all other residues are
           unmarked. This overrides any other markup that you may have specified using the qualifiers
           '-squares', '-diamonds' and '-octags'.

       -squares string
           By default the aliphatic residues ILVM are marked with squares. Default value: ILVM

       -diamonds string
           By default the residues DENQST are marked with diamonds. Default value: DENQST

       -octags string
           By default the positively charged residues HKR are marked with octagons. Default value: HKR

       -graph graph

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

       pepnet 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                                         PEPNET(1e)