Create matrix logo (analysis)

Analysis title

Create matrix logo

Provider

geneXplain GmbH

Class

MatrixLogoMaker

Plugin

com.genexplain.tfbs (geneXplain tfbs)

Create matrix logos

This tool creates logo presentations for position weight or frequency matrices of transcription factor binding sites.

The output folder contains one PNG image for each matrix of the specified input. Existing files in the output folder are not overwritten. In case of name conflicts the tool suffixes a file name with a number.

Parameters

• PWM (profile or matrix) - Path to input profile or matrix
• Logo size - Size of logo image
• Reverse - Create logo for reverse orientation
• Adjust height to information - Adjust total height of bases to information content of position
• Sort bases - Sort bases, most important on top
• Plot lines - Draw lines behind bases partitioning plot region into four sections
• Output folder - Output folder for logos