Skip to content

JAVA implementation of MBEA algorithm from the paper: Zhang, Y., Phillips, C., Rogers, G., Baker, E., Chesler, E. and Langston, M. (2014). On finding bicliques in bipartite graphs: a novel algorithm and its application to the integration of diverse biological data types. BMC Bioinformatics, 15(1), p.110.

Notifications You must be signed in to change notification settings

gaurabdg/maximal-biclique-enumeration

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 

History

12 Commits
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 

Repository files navigation

maximal-biclique-enumeration

Usage Instructions:

Update: Extension for finding Minimum Biclique Cover is added.

Execution

Run the JAR file with the file containing the adjacency matrix and the type of output required as arguments.

  • standard - compute all maximal bicliques(MBEA)
  • MBC - find the minimum nuber of bicliques required to cover all edges(Minimum Biclique Cover problem)

$ java -jar MBEA.jar path_to/filename.txt _type_

Interpreting the output:

lNode1 lNode2 ... <-> rNode1 rNode2 ... is a maximal biclique satisfying the conditions.

  • lNode_i_ belongs to the left vertex set
  • rNode_i_ belongs to the right vertex set

To test:

Go to the main directory and execute :

$ java -jar MBEA.jar matrix.txt MBC

Output:

1 3 <-> 5 7 
2 3 <-> 5 8 
3 4 <-> 6 7 8 

TODO:

  • Implement the improved version of MBEA algorithm
  • Runbenchmarks for the algorithms
  • Add MBC extension

About

JAVA implementation of MBEA algorithm from the paper: Zhang, Y., Phillips, C., Rogers, G., Baker, E., Chesler, E. and Langston, M. (2014). On finding bicliques in bipartite graphs: a novel algorithm and its application to the integration of diverse biological data types. BMC Bioinformatics, 15(1), p.110.

Topics

Resources

Stars

Watchers

Forks

Releases

No releases published

Packages

No packages published

Languages