jaspscan - Scans DNA sequences for transcription factors

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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                                       JASPSCAN(1e)

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

       jaspscan - Scans DNA sequences for transcription factors

Inputsection-sequenceseqall-menulist
           Default value: C

       -matricesstring
           The name 'all' reads in all matrix files from the selected JASPAR matrix set. You can specify
           individual matrices by giving their names with commas between then, such as: 'ma0001.1,ma0015*'. The
           case of the names is not important. You can specify a file of matrix names to read in by giving the
           name of the file holding the matrix names with a '@' character in front of it, for example,
           '@matrix.list'. Blank lines and lines starting with a hash character or '!' are ignored and all other
           lines are concatenated together with a comma character ',' and then treated as the list of enzymes to
           search for. An example of a file of matrix names is: ! my matrices ma0001.1, ma0002.1 ! other
           matrices ma0010.1 ma0032* ma0053.1 Default value: all

   Requiredsection-thresholdfloat
           If the matrix score is greater than or equal to this percentage then a hit will be reported Default
           value: 80.0

   Additionalsection-excludestring
           The names of any matrices to exclude from the 'matrices' list. Matrices are specified in the same way
           as for the selection list.

       -bothboolean
           If set then both the forward and reverse strands are searched Default value: N

   Outputsection-outfilereport

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

jaspscan-sequenceseqall-menulist-matricesstring-thresholdfloat [-excludestring] [-bothboolean]
                -outfilereportjaspscan-help