Graphminator

24 Eylül 2009 Perşembe

Hypergraph Implementation in C++ using LEDA

I implemented a code for the specific graphs called "Hypergraphs". There are some works to be done. Here are header file and declerations

Open publication - Free publishing - More leda

Open publication - Free publishing - More hypergraph

7 Eylül 2009 Pazartesi

Graphviz to LEDA convertor

I am able to use LEDA C++ library. For some applications and for some comparisons, I need to convert graphs from LEDA to Grapviz format. I am working on it, and I will post the LEDA source code later.

I worked on the topic related with Directed Layered Graphs. I think that it would be useful to see existing graphs of LEDA in graphviz.

Here is preliminary showcase of the work

Open publication - Free publishing - More wolf

2 Eylül 2009 Çarşamba

Simple Bicluster View Chart with Java

If you need the jar file or source code please send me an email. The program uses Jchart Package for Java.

Open publication - Free publishing - More viewer

17 Mayıs 2009 Pazar

Nine Men's Morris

This is Nine Men's Morris game the graph is produced using LEDA C++ library. For the code please email me.

Open publication - Free publishing - More leda

16 Nisan 2009 Perşembe

BICoB 2009 Presentation

Last week, I was in New Orleans for BICoB 2009 conference. We presented a paper named "Biclustering Expression Data Based on Expanding Localized Substructures". It could be found in this proceeding.

My presentation

Open publication - Free publishing - More bicob

My Publications

Journal Papers

3. Ahmet Emre Aladağ, Cesim Erten, Melih Sozdinler, "Robinviz: Reliability Oriented Bioinformatic Networks Visualization", Bioinformatics(2011) 27(11):1583-1584, doi: 10.1093/bioinformatics/btr178,

http://bioinformatics.oxfordjournals.org/content/27/11/1583

website: http://code.google.com/p/robinviz/

2. Cesim Erten, Melih Sozdinler, "Improving performances of suboptimal greedy iterative biclustering heuristics via localization" Bioinformatics 26(20): 2594-2600 ,2010,

website: http://code.google.com/p/biclustering/

1. A.O. Cakiroglu, C. Erten, O. Karatas, M. Sozdinler, "Crossing Minimization in Weighted Bipartite Graphs", Journal of Discrete Algorithms (JDA), vol.7, no.4, pp.439-452, 2009.

Conference Papers

4. A. E. Aladağ, C. Erten, M. Sozdinler,"An integrated model for visualizing biclusters from gene expression data and PPI networks", Proc. Int. Symp. on Biocomputing (ISB), ACM New York, NY, USA, pp.1-8, 2010

3. C. Erten, M. Sozdinler, "Biclustering Expression Data Based on Expanding Localized Substructures", Proc. Int. Conf. on Bioinformatics and Computational Biology (BICOB), Lecture Notes in Bioinformatics 5462, pp.224-235, 2009.

2. C. Erten, M. Sozdinler, "A Robust Biclustering Method Based on Crossing Minimization in Bipartite Graphs", Proc. Int. Symp. Graph Drawing (GD), Lecture Notes in Computer Science 5417, pp. 439-440, 2009.

1. A.O. Cakiroglu, C. Erten, O. Karatas, M. Sozdinler, "Crossing Minimization in Weighted Bipartite Graphs", Proc. 6th Workshop on Experimental Algorithms (WEA), Lecture Notes in Computer Science 4525, pp. 122-135, 2007.