Java

Cleaning

Jun 20th

Cleaned up the coding.

Also fixed the name servers.

Code, Java

Jun 17th

Posted by Andrew in Ondex

The second motif that was defined has been completed in Java.

Example output from Java (cutoff dataset):

Code was ran on the updated dataset:

There were 70,866 instances of this motif definition in the dataset.
However, this doesn’t address the issue of the OMIM database. So many of these will not have true “Diseases”. This would probably be best addressed when trying to score this type, if its even possible to do this.

May 24th

Posted by Andrew in Ondex

Browsed other Ondex filter classes for solutions to the iterator problem:

Exception in thread "main" java.lang.NoSuchMethodError: net.sourceforget.ondex.core.ONDEXView.iterator()Ljava/util/Iterator;

Tried a number of methods but still getting the Iterator error no matter what.

Trying a Set/HashSet approach.

Java, Ondex