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In `stamina::checker::StaminaModelChecker`, two transient analysis are being performed, one for $P_{min}$ and one for $P_{max}$. If we have already performed the model-checking, we should have all of …
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I like to run analyses using CTMC+Gamma=1 to compare to CTMC+Gamma=4 (especially for small datasets). The current `BinaryCTMC` template defaults to CTMC+Gamma=4. It's not too much hassle to turn off G…
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## Rough ideas, need vetting.
- reference CTMC
- [Solving the Forecast Combination Puzzle](https://arxiv.org/pdf/2308.05263.pdf) via log-linear Hyvaarinen stacking (locking).
- Quality of sp…
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@brettjepsen Running the command below generated null pointer exception. The same happened to the power option.
$ stamina -gaussseidel toggle_IPTG_0_tmp.prism toggle_IPTG_0.csl
Picked up _JAVA_O…
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# Description
Application of the TIV model to real data seems like a good example for the hybrid modelling approach. Baccam *et al* (2006) provides an analysis we could replicate to validate our ap…
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Hi @mmcky , when I use the command ``jupyter-book build ctmc_lectures/`` to build html files from the original files, I come across 4 issues:
1. ``970 : WARNING: duplicate citation``,
2. ``OSError: …
shlff updated
3 years ago
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As far as I can see the only way to set up a binary ctmc or covarion analysis in BEAUTi is to use the included templates. This makes it hard to use a different template (e.g. MultiTypeTree or somethin…
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Trying to replicate the bug report in https://sourceforge.net/p/prism-mc/bugs/20/, I stumbled upon another bug: The simulator hangs indefinitely sampling a path for the second property.
bug.prism:
`…
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In the case that i=j, the function should return an MFPT of 0.0 for a CTMC and an MFPT of 1/pi[i] for a DTMC, where pi is the stationary distribution.
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within a time step, most well formulated epi models (at least in the style of starting with ODEs/flows and turning them into a CTMC) should allow all matches to be applied in parallel (disjoint unions…