LOLA (LOgos Look Amazing) is a tool for generating sequence logos using Position Weight Matrix based protein profiles. LOLA allows you to generate custom sequence logos by setting parameters such as logo height, trim percentage, and residue colour scheme. You can then save logos in various formats including PDF, PNG, and JPEG.

LOLA is currently in beta-testing. Version 1.0-beta is now available for download.

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Latest Download

LOLA Version 1.0 Beta: [attachment:lola-1.0-beta.tar Download]

Requirements

Java Runtime Environment (JRE) 1.5 or later is required to run LOLA. All other dependencies are included in the download.

Installing and Running

• Extract the TAR file. This will create a directory named "lola".
• On Linux, open the command shell and run "lola.sh" from the "lola" directory.
• On Windows, double click "lola.bat".
• On Mac, double click lola-1.0-beta.jar
• You can open a single peptide file, or a project file linked to multiple peptide files.

Here's a view of LOLA after opening a PDZ domain project file:

attachment:lolaScreenShot.png

Future Developments

• Generate a "logo tree" by hiearchically clustering logos
• Allow colours to be selected for individual amino-acids
• Add support for nucleic acids
• Additional visualization options (e.g. font, axis labels)

Contact

If you have any questions or feedback, please email Moyez Dharsee at mdharsee@infochromics.com.