DOKK / manpages / debian 12 / emboss / edialign.1e.en
EDIALIGN(1e) EMBOSS Manual for Debian EDIALIGN(1e)

edialign - Local multiple alignment of sequences

edialign -sequences seqset -nucmode list -revcomp boolean [-overlapw selection] [-linkage list] [-maxfragl integer] -fragmat boolean -fragsim integer [-itscore boolean] [-threshold float] -mask boolean -dostars boolean -starnum integer -outfile outfile -outseq seqoutall

edialign -help

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

-sequences seqset

-nucmode list

Nucleic acid sequence alignment mode (simple, translated or mixed) Default value: n

-revcomp boolean

Default value: N

-overlapw selection

By default overlap weights are used when Nseq =<35 but you can set this to 'yes' or 'no' Default value: default (when Nseq =< 35)

-linkage list

Clustering method to construct sequence tree (UPGMA, minimum linkage or maximum linkage) Default value: UPGMA

-maxfragl integer

Default value: 40

-fragmat boolean

Default value: N

-fragsim integer

Default value: 4

-itscore boolean

Default value: N

-threshold float

Default value: 0.0

-mask boolean

Default value: N

-dostars boolean

Default value: N

-starnum integer

Default value: 4

-outfile outfile

-outseq seqoutall

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).

edialign 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.

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