Hexp calcuation is erroneous about poppr HOT 4 CLOSED

To ensure that things are working correctly, I will write a test based on the example presented in Kosman (2003).

from poppr.

Currently, the strategy is:

If it's polyploid, change to unbiased Simpson's index over alleles:

(n/(n - 1)) * 1 - sum(pi^2)

This way a measure can actually be reached instead of having complaints of missing data in the result.

Currenlty, locus table will report a different column name, and poppr probably should as well.

Now, I just need to fix the documentation:

• adjust documentation in locus_table()
• adjust documentation in poppr()
• adjust documentation in vignette (that was wrong anyways 😩)

from poppr.

The new column name for poppr and locus_table is Mu.

from poppr.

Scratch that, reverse it.

The calculation will be

(n/(n - 1)) * 1 - sum(p^2)

where n is the number of observed alleles. This will impact polyploids and mixed ploidy populations by increasing diversity, but it's better than using kN, which would increase it even more.

from poppr.