digest - Reports on protein proteolytic enzyme or reagent cleavage sites

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           Wrote the script used to autogenerate this manual page.

       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).

       This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be
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EMBOSS 6.4.0                                       05/11/2012                                         DIGEST(1e)

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

       digest - Reports on protein proteolytic enzyme or reagent cleavage sites

Inputsection-seqallseqall-mwdatadatafile
           Molecular weight data for amino acids Default value: Emolwt.dat

   Requiredsection-menulist
           Default value: 1

       -monoboolean
           Default value: N

   Advancedsection-unfavouredboolean
           Trypsin will not normally cut after 'KR' if they are followed by any of 'KRIFLP'. Lys-C will not
           normally cut after 'K' if it is followed by 'P'. Arg-C will not normally cut after 'R' if it is
           followed by 'P'. V8-bicarb will not normally cut after 'E' if it is followed by any of 'KREP'.
           V8-phosph will not normally cut after 'DE' if they are followed by 'P'. Chymotrypsin will not
           normally cut after 'FYWLM' if they are followed by 'P'. Specifying unfavoured shows these unfavoured
           cuts as well as the favoured ones.

       -raggingboolean
           Allows semi-specific and non-specific digestion. This option is particularly useful for generating
           lists of peptide sequences for protein identification using mass-spectrometry.

       -terminilist
           Default value: 1

   Outputsection-overlapboolean
           Used for partial digestion. Shows all cuts from favoured cut sites plus 1..3, 2..4, 3..5 etc but not
           (e.g.) 2..5. Overlaps are therefore fragments with exactly one potential cut site within it.

       -allpartialsboolean
           As for overlap but fragments containing more than one potential cut site are included.

       -outfilereport

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

digest-seqallseqall-mwdatadatafile-menulist-monoboolean-unfavouredboolean-raggingboolean-terminilist-overlapboolean-allpartialsboolean-outfilereportdigest-help