Currently, the homozygosity by descent segments are not analyzed. I may be interested in including these, which may affect the case-control scan for founder populations. To do this, I would have to:
- Does ibd-ends handle homozygosity by descent segments well?
- Adjust the denominator in calculations of IBD rate
- Is the null model distribution still a good approximation in this case?
- Snakemake workflows that process the HBD segments in as many rules as they do the IBD segments
Currently, the homozygosity by descent segments are not analyzed. I may be interested in including these, which may affect the case-control scan for founder populations. To do this, I would have to: