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Unify handling of fixations. #97

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molpopgen opened this issue Mar 7, 2018 · 1 comment

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API enhancement

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molpopgen commented Mar 7, 2018 •

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Placeholder issue for now...

The current handling of fixations is not ideal:

it leads to modeling errors
the pruning policy stuff affects efficiency of fitness calculations.

Any fixes will break API...

To address this:

Fixations should always be removed.
Neutral/selected fixations should be separated in population objects
Genetic value functions need updating to calculate the contribution of fixations each generation and apply that to each diploid.
Meta-populations and multi-locus simulations may need special thought. For the latter, selected fixations will need sorting by position to match them up to each locus.

molpopgen changed the title ~~Unify han~~ Unify handling of fixations.

molpopgen added enhancement API labels

molpopgen added this to the 0.6.0 milestone

molpopgen modified the milestones: 0.6.0, 0.7.0

molpopgen removed this from the 0.7.0 milestone

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molpopgen commented Nov 14, 2018

Tree sequence recording makes this a bit less pressing? See #167, for example.

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