Closed sdtemple closed 3 months ago
You can use any IBD segment detection software you prefer.
The method should result in few false positives and few false negatives.
If you use another IBD detection tool, use the rules/
in workflow/
pipelines as a blueprint.
See this paper for a non-independent benchmarking of some methods.
Some methods vetted on human data:
Some methods vetted on haploid Plasmodium falciparum data:
The pipelines are built to run
hap-ibd.jar
andibd-ends.jar
.