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We should have a paragraph on prior applications of tHMMs since there are one or two. I would also mention linkage analysis here, and analysis of incomplete penetrance in family trees.
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E.g., a survey with branching logic asked two different subpopulations the same question in two different places: "how long do you plan to stay?" Because question text is effectively the unique ID fo…
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When the detector is saturated high, we end up with a sudden peak at the top of its range, followed by nothing (or almost nothing). It would be nice to be able to give warnings for saturation on samp…
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It's come to my attention that we don't explain that the first generation individuals are present in the `.trees` output file anywhere (that I could find?) in the manual. This, and probably a few more…
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##### Expected behaviour
I would expect the algorithm to be able to embed into 3 dimensions.
##### Actual behaviour
Documentation reports that only 2d embedding is available.
####What I want t…
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Hi Dr Peng and every SimuPOP user!
I am just started with SimuPOP (and Python) so I have many, many things to learn and I hope this is the right place to ask questions (maybe I should use the maili…
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I'm using RFmix (v1.4) but that unfortunately dumps core (working on cluster 55G), CHR9. I came across this git repo and thought to give this a try. I compile, make, configure get the rfmix executable…
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Hi,
I was wondering if you have tested MANTIS on mouse samples?
Also I was thinking since Mantis uses the MS regions generated by RepeatFinder and gets the distribution of the repeats at those lo…
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Hello, two related questions about using sub-populations:
1) Is it possible to reference multiple plans inputs at setup and declare sub-population in setup? I came across such an issue marked as reso…
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Hi I am trying to get subpopulations to work (see https://github.com/matsim-org/matsim-code-examples/issues/76), using the example project in equilibrium extended I tried restructuring my `planCalcSco…