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I have been using related successfully for the past two years with datasets consisting of 100-200 individuals and 10-15 loci. However, I am now trying to use it with a dataset consisting of ~500 individuals and 14 loci and when I use the coancestry function, it always returns a fatal error. I am using R 4.3.1.
Any help with this would be appreciated.
Thanks,
Cory
The text was updated successfully, but these errors were encountered:
Hi Cory:
Yes, I'm afraid that this is a known problem that does not have an easy fix.
I wrote related quite a long time ago, when microsatellites were still the main marker of choice. As a result, I did not put any thought into how the package uses memory. This was never a problem until people started trying to use related to analyze SNP data sets (with hundreds to thousands of loci). Fixing this problem will require a complete rewrite of the package, which I have not had time to do. I am, however, hoping to get a student this academic year to try to help with this, so hopefully a fix is in the not-too-distant future (but still probably a few months).
______________________________
Timothy R. Frasier
Coordinator: Forensic Sciences Program
Professor: Biology
Saint Mary's University
923 Robie Street
Halifax, Nova Scotia B3H 3C3
Canada
Tel: (902) 491-6382
E-mail: ***@***.***
frasierlab.ca
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Subject: [timothyfrasier/related] coancestry() resulting in fatal error with large datasets (Issue #16)
Hi Timothy,
I have been using related successfully for the past two years with datasets consisting of 100-200 individuals and 10-15 loci. However, I am now trying to use it with a dataset consisting of ~500 individuals and 14 loci and when I use the coancestry function, it always returns a fatal error. I am using R 4.3.1.
Any help with this would be appreciated.
Thanks,
Cory
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Hi Timothy,
I have been using related successfully for the past two years with datasets consisting of 100-200 individuals and 10-15 loci. However, I am now trying to use it with a dataset consisting of ~500 individuals and 14 loci and when I use the coancestry function, it always returns a fatal error. I am using R 4.3.1.
Any help with this would be appreciated.
Thanks,
Cory
The text was updated successfully, but these errors were encountered: