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benchmark Drosophila simulations #18

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petrelharp opened this issue Oct 19, 2021 · 1 comment
Open

benchmark Drosophila simulations #18

petrelharp opened this issue Oct 19, 2021 · 1 comment

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@petrelharp
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We'd like to know how big of a rescaling factor do we need to run simulations of Drosophila (under the Sheehan & Song demographic model). We'd like to know, for instance, how long it takes to run simulations of varying sequence lengths with various rescaling factors using SLiM and a DFE (Johri et al and Huber et al; see this issue and this one).

My suggestion for how to do this is to do simulations of a bunch of small values of sequence length (say, up to a megabase) and a bunch of rescaling factors (say, 1-100); terminate jobs after 6 hours; and then extrapolate the timing of the jobs that finish out to where we want to be. (Also, have the jobs keep track of where they get to.)

@mufernando
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do we want to do this still?

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