ODDCOMP(1e) | EMBOSS Manual for Debian | ODDCOMP(1e) |
NAME¶
oddcomp - Identify proteins with specified sequence word compositionSYNOPSIS¶
oddcomp -sequence seqall -infile infile -fullwindow toggle -window integer -ignorebz boolean -outfile outfile
oddcomp -help
DESCRIPTION¶
oddcomp is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Protein:Composition" command group(s).OPTIONS¶
Input section¶
-sequence seqall-infile infile
This is a file in the format of the output produced by
'compseq' that is used to set the minimum frequencies of words in this
analysis.
Required section¶
-fullwindow toggleSet this option on (Y) if you want the window size to be
set to the length of the current protein. Otherwise, leave this option unset,
in which case you'll be prompted for a window size to use. Default value:
N
-window integer
This is the size of window in which to count. Thus if you
want to count frequencies in a 40 aa stretch you should enter 40 here. Default
value: 30
Advanced section¶
-ignorebz booleanThe amino acid code B represents Asparagine or Aspartic
acid and the code Z represents Glutamine or Glutamic acid. These are not
commonly used codes and you may wish not to count words containing them, just
noting them in the count of 'Other' words. Default value: Y
Output section¶
-outfile outfileThis is the results file.
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¶
oddcomp 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.
05/11/2012 | EMBOSS 6.4.0 |