[Biojava-dev] Developing LD visualizer

[Schreiber, Mark]

Hi -
 
The development version of biojava is targetting Java 1.4 so this shouldn't be a problem. If you take a look at the core Symbol and Sequence API's you'll probably get some idea of how you might be able to integrate you LD work.
 
If you get stuck, just ask some questions on the list.
 
- Mark
 

	-----Original Message----- 
	From: Takaho A. Endo [mailto:endo at genetix-h.com] 
	Sent: Mon 8/09/2003 12:19 p.m. 
	To: biojava-dev at biojava.org 
	Cc: 
	Subject: [Biojava-dev] Developing LD visualizer
	
	

	Dear all,
	
	   I am studying in medical faculty of Tokai University, Japan.
	   For a certain sake I have developed a visualizing application of
	linkage disequilibrium.
	
	   The name of the application is ALDER (autonomic linkage
	disequilibrium (LD) expression resources). This is a GOLD(1)-like but
	finer application written in Java, which calculates LD by itself and
	shows LD graphs reflecting marker distance.
	
	   Due to current trend, we are required to show haplotype blocks in
	papers of linkage/association studies.
	   I think my application is useful for such purposes.
	
	   You can download binary, sample data and source codes from my
	personal site (2).
	   I would like to contribute to BioJava project with my program if you
	accept, although it requires JRE 1.4 or more which is different from
	other codes in your project.
	   I am glad with any opinions and comments for my program.
	
	   Best regards.
	
	
	1) http://www.sph.umich.edu/csg/abecasis/GOLD/download/index.html
	2) http://homepage.mac.com/takaho_e/biology/alder/index.html
	
	---
	Takaho A. Endo
	
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