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Merge pull request #433 from jeromekelleher/final-readthrough5
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Final readthrough5
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jeromekelleher authored Nov 3, 2023
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Expand Up @@ -335,8 +335,8 @@ \section{Genome ARGs}

How nodes are interpreted, exactly, is application dependent.
Following \citet{hudson1983properties}, we can view nodes
as representing gametes, or we can imagine them representing
the genomes present in cells immediately before or after
as representing gametes, or we can imagine them representing,
for example, the genomes present in cells immediately before or after
some instantaneous event (Appendix~\ref{sec-cell-lineages-and-args}).
A node can represent any genome along a chain of cell divisions
or can be interpreted as representing one of the genomes of a
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% minimally simplified gARG.

The schematic illustrates an important point about the biological reality of polytomies.
Three linages coalesce in the left-hand genome of individual $D_{10}$, but do
Three lineages coalesce in the left-hand genome of individual $D_{10}$, but do
so as the result of two successive bifurcations. This is \emph{necessarily} so,
because the only known method of reproducing DNA is by (semi-conservative) duplication.
Whether this polytomy is resolvable depends on the available mutational data.
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