supermatcher − Match large sequences against one or more other sequences
supermatcher −asequence seqall −bsequence seqset [−datafile matrixf] −gapopen float −gapextend float [−width integer] [−wordlen integer] −outfile align [−errorfile outfile] |
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supermatcher −help |
supermatcher is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Alignment:Local" command group(s).
Input section
−asequence seqall
−bsequence seqset
−datafile matrixf
This is the scoring matrix file used when comparing sequences. By default it is the file ´EBLOSUM62´ (for proteins) or the file ´EDNAFULL´ (for nucleic sequences). These files are found in the ´data´ directory of the EMBOSS installation.
Required section
−gapopen float
Default value: @($(acdprotein)? 10.0 : 10.0)
−gapextend float
Default value: @($(acdprotein)? 0.5 : 0.5)
Additional section
−width integer
Default value: 16
−wordlen integer
Default value: 6
Output section
−outfile align
−errorfile outfile
Error file to be written to Default value: supermatcher.error
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).
supermatcher is fully documented via the tfm(1) system.
Debian−Med Packaging Team <debian−med−packaging@lists.alioth.debian.org>
Wrote the script used to autogenerate this manual page. |
Copyright © 2007 Debian-Med Packaging Team
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.