A software package for optical mapping data processing, analysis and visualization

Please refer to "OMToolsManual.pdf" for more details.

1. Compile the OMTools package in the OMTools folder: javac -d bin -sourcepath src -cp "lib/*" @classes
2. Build a runnable jar file for OMTools: jar cvfm OMTools.jar manifest -C bin .
3. Run OMTools: java -jar OMTools.jar

You may refer to the wiki page to check how to use OMTools, particularly for the latest DLE-1 data.

In case other users have the same problems in using OMTools, please report the potential issues on the Issues page. We will answer you ASAP.

1. Leung, Alden King-Yung, et al. "OMBlast: alignment tool for optical mapping using a seed-and-extend approach." Bioinformatics (2017).

2. Leung, Alden King-Yung, et al. "OMTools: a software package for visualizing and processing optical mapping data." Bioinformatics (2017).