MarsDogCatGenomics
Analysis scripts for MARS Dog/Cat project with Michelle White from Elinor Karlsson’s lab.
Technical steps that enable downstream analyses:
- Infer population structure and show it does or does not correlate with breeds
- PCA color by breed (plink2/hail)
- ADMIXTURE, use multiple K and run CV. Use elbow method to get optimal K.
- Infer genetic maps
- Pyrrho, requires the SMC++ population size estimates for each population/breed. How is it affected by admixture?
Now it
This is a companion discussion topic for the original entry at github.com/AkeyLab/MarsDogCatGenomics/test