-
When doing inference in a two-generation family, markers with more than two alleles aren't always inferred right.
This shouldn't be too hard to fix.
2007-01-04 20:17:01 UTC by jburdick
-
You should just input the extended IBD information (which includes all the information the default non-extended IBD file includes.)
The program can take some time to run, if it's working on a large region. However, please let me know if it continues to hang after you've tried that.
thanks,
Josh.
2006-11-07 15:06:46 UTC by jburdick
-
I have computed the extended IBD information using Merlin for nuclear pedigrees with two sibs. I have SNP genotypes for one sib and am trying to infer the SNPs for the other sib. When issuing the inferrer command, do I put both of the Merlin IBD files after the -i option or just the one with the extended information? Seems no matter what I do, the program just hangs after submitting the command.
2006-10-25 16:27:07 UTC by adynder
-
When the IBD file contains marker names that aren't in
the map file, it core dumps.
Should print an error message instead.
2006-10-09 15:25:39 UTC by jburdick
-
Someone asked about how to use MERLIN to compute IBD. Assuming you're doing inference in three-generation pedigrees, you'll need the flags "--ibd" (to request IBD information), "--singlepoint" (because we're only doing inference where IBD is certain), and "--markerNames" (so that the IBD file will contain marker names instead of locations.)
A typical command to...
2006-10-06 18:38:21 UTC by jburdick
-
just testing that this works...
2006-10-06 17:26:13 UTC by jburdick
-
jburdick committed patchset 3 of module genotypeinference to the genotype inference CVS repository, changing 1 files.
2006-09-01 18:27:00 UTC by jburdick
-
jburdick committed patchset 2 of module genotypeinference to the genotype inference CVS repository, changing 43 files.
2006-09-01 18:13:22 UTC by jburdick
-
jburdick committed patchset 1 of module genotypeinference to the genotype inference CVS repository, changing 43 files.
2006-09-01 18:13:22 UTC by jburdick
-
Anonymous committed patchset 1 of module CVSROOT to the genotype inference CVS repository, changing 11 files.
2006-07-20 02:10:47 UTC by nobody
