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

# pepnet(1e)

Draw a helical net for a protein sequence

## NAME

pepnet - Draw a helical net for a protein sequence

## SYNOPSIS

**pepnet** **-sequence** *sequence* **-amphipathic** *toggle* **-squares** *string* **-diamonds** *string* **-octags** *string* **-graph** *graph*

**pepnet** **-help**

## DESCRIPTION

**pepnet** is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Display,Protein:2D Structure" command group(s).

## OPTIONS

### Input section

- **-sequence** *sequence*

  ### Output section

- **-amphipathic** *toggle*

  If this is true then the residues ACFGILMVWY are marked as squares and all other residues are unmarked. This overrides any other markup that you may have specified using the qualifiers '-squares', '-diamonds' and '-octags'.

- **-squares** *string*

  By default the aliphatic residues ILVM are marked with squares. Default value: ILVM

- **-diamonds** *string*

  By default the residues DENQST are marked with diamonds. Default value: DENQST

- **-octags** *string*

  By default the positively charged residues HKR are marked with octagons. Default value: HKR

- **-graph** *graph*

  ## 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

pepnet 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.