I'm looking for a good source of information about Analysis of Molecular Variance (AMOVA), a kind of statistical analysis used in population genetics. Especially how are the $phi$-statistics calculated and what is the difference compare to F-statistics (fixation index) in measuring the level of differentiation among diffrent population divisions.
I know you didn't ask for an implementation of it, but the fact that a free one exists in package ade4 for R must be helpful. The help file references
Excoffier, L., Smouse, P.E. and Quattro, J.M. (1992) "Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data." Genetics, 131, 479–491.
Which is also cited by Wikipedia and I would guess (not my area) is the definitive reference.
- Solved – a good textbook on statistical genetics for someone without a lot of biology background
- Solved – PhD in statistics, but unsure of how much pure math is needed as requirements
- Solved – Best books for a population-ecology and biology statistics
- Solved – Comparing datasets from 2 biological replicates
- Solved – How to calculate genetic similarities between groups