---
name: "edialign"
section: "1e"
platform: "linux"
package: "emboss"
version: "6.6.0+dfsg-15"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/edialign"
---

# edialign(1e)

Local multiple alignment of sequences

## NAME

edialign - Local multiple alignment of sequences

## SYNOPSIS

**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**

## DESCRIPTION

**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).

## OPTIONS

### Input section

- **-sequences** *seqset*

  ### Additional section

- **-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

### Output section

- **-mask** *boolean*

  Default value: N

- **-dostars** *boolean*

  Default value: N

- **-starnum** *integer*

  Default value: 4

- **-outfile** *outfile*

  - **-outseq** *seqoutall*

  ## 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

edialign 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.