EPESTFIND(1e) | EMBOSS Manual for Debian | EPESTFIND(1e) |
NAME¶
epestfind - Finds PEST motifs as potential proteolytic cleavage sitesSYNOPSIS¶
epestfind -sequence sequence [-mwdata datafile] -window integer -order selection [-threshold float] -mono boolean -potential boolean -poor boolean -invalid boolean -map boolean -outfile outfile -graph xygraph
epestfind -help
DESCRIPTION¶
epestfind is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Protein:Motifs" command group(s).OPTIONS¶
Input section¶
-sequence sequenceProtein sequence USA to be analysed.
-mwdata datafile
Default value: Emolwt.dat
Required section¶
-window integerMinimal distance between positively charged amino acids.
Default value: 10
-order selection
Name of the output file which holds the results of the
analysis. Results may be sorted by length, position and score. Default value:
score
Additional section¶
-threshold floatThreshold value to discriminate weak from potential PEST
motifs. Valid PEST motifs are discriminated into 'poor' and 'potential' motifs
depending on this threshold score. By default, the default value is set to
+5.0 based on experimental data. Alterations are not recommended since
significance is a matter of biology, not mathematics. Default value:
+5.0
Advanced section¶
-mono booleanDefault value: N
-potential boolean
Decide whether potential PEST motifs should be printed.
Default value: Y
-poor boolean
Decide whether poor PEST motifs should be printed.
Default value: Y
-invalid boolean
Decide whether invalid PEST motifs should be printed.
Default value: N
-map boolean
Decide whether PEST motifs should be mapped to sequence.
Default value: Y
Output section¶
-outfile outfileName of file to which results will be written.
-graph xygraph
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¶
epestfind 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 |