Biostar Beta. Not for public use.
lookup table for LDhat
Entering edit mode
18 months ago
prasundutta87 • 330


I have 79 individuals (water buffalo) for which I need to generate a look up table. I have two questions after I came across this post-

1) Since I have 79 individuals, I was using 'complete' program to generate a look up table for each chromosome. (Buffalo has 24 autosomal chromosomes). So, I have .sites and .loc file for each chromosomes. So, should my -n be 158 (=2*79) for every 'complete' run for each chromosome?

2) Is it advisable to use (n=120, theta=0.001 per site) or (n=192, theta=0.001 per site) to generate my own look up table for each chromosome if my look up table generation is going to take a long time? (and use lkgen instead)?


Login before adding your answer.

Similar Posts
Loading Similar Posts
Powered by the version 2.3.1