Comments on: Identity by State SNP Analysis: Find Relatives, Test Paternity, and Determine Allele Sharing

By: Rick Byers

Rick Byers — Sun, 23 May 2010 05:07:52 +0000

This is cool, thanks! Any chance you’re planning on sharing the source code? I’ve been writing my own code to analyze my SNPs, but would like to move to a common open-source Java bio framework if one exists (for leverage). BioJava doesn’t seem to have any support for SNPs. Are you aware of any such framework?

By: hongiiv

hongiiv — Tue, 06 Apr 2010 00:26:51 +0000

This article is mirrored in Korean at http://hongiiv.tistory.com/625
Thank you Alex.

By: wayne

wayne — Mon, 02 Nov 2009 00:43:48 +0000

I definitely vote for larger output graphic sizes. I wouldn’t mind if there was a way to multi-thread it to take advantage of the multiple cores/thread that are present in current systems. But then my 920 based Dell cranks. 13 minutes for a RAW calculation.

I’m doing HIR comparisons for the Anabaptist/Amish/Mennonite/Brethern/PA dutch participants at 23andMe.

By: admin

admin — Mon, 26 Oct 2009 21:01:06 +0000

Hi Mike,

Thanks for your suggestions. I’m working on a GUI version of the program. One of the things I wanted to include was better resolution for the image. It will also include the ability to set your own variables (SNPs covered, and the threshold frequencies for the different IBS calls). Hopefully I’ll have the update posted before the end of the week.

-Alex

By: mike

mike — Mon, 26 Oct 2009 06:15:42 +0000

The standard draw could have options, I can handle a 200% size increase. Did it in Paint but it looses clarity.

Standard run only 2 minutes, 20m as you say for RAW.

Its a handy thing to help others understand how two are related.

Thanks for the effort

Mike