An alignment tool for optical mapping data
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bin/aldenjava
lib
src/aldenjava
OMBlast.jar
OMBlastManual.pdf
OpticalMapFileSpecification.pdf
README.md
classes
manifest

README.md

OMBlast

An alignment tool for optical mapping data

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

Quick steps

  1. Compile the OMBlast package in the OMBlast folder: javac -d bin -sourcepath src -cp "lib/*" @classes
  2. Build a runnable jar file for OMBlast: jar cvfm OMBlast.jar manifest -C bin .
  3. Run OMBlast: java -jar OMBlast.jar
  4. Run other scripts: (Linux) java -cp “bin:lib/” aldenjava.script.ScriptName (Windows) java -cp “bin;lib/” aldenjava.script.ScriptName