Module Detail Information

Name:Pepnet
Type: Module
Short URL:
http://bit.ly/1B7Efgz
Description:pepnet draws a helical net for an input protein sequence. This is a method of displaying the residues of a protein in a simple 3,4,3,4 repeating pattern that emulates at a simple level the arrangement of residues around an alpha helix. It is therefore easy to see patterns of amphipathicity that you may wish to investigate in more detail by using displays such as pepwheel. You can specify which residues to mark up in squares, diamonds and octagons.
Executable:
/pepnet
Input Parameters:
 - Sequence
 - Start
 - End
 - Reverse
 - Ask
 - Nucleotide
 - Protein
 - Lower Case
 - Upper Case
 - Format
 - Database Name
 - Entry Name
 - UFO Features
 - Features Format
 - Features File
 - Turn Off Prompts
 - Standard Output
 - Filter
 - Options
 - Debug
 - Verbose
 - Help
 - Report Warnings
 - Report Errors
 - Report Fatal Errors
 - Report Dying Program Messages
 - Graph Type
 - Graph Prompting
 - Graph Description
 - Graph Title
 - Graph Subtitle
 - Graph X-Axis Title
 - Graph Y-Axis Title
 - Version
 - Mark Residues with Squares
 - Mark Residues with Dianmonds
 - Mark Residues with Octagons
 - Residues ACFGILMVWY Marked with Squares
Output Parameters:
 - Graph Output File
 - Graph Output Directory
File size:28.54 KB
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