SLiM
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MesserLab
SLiM is a genetically explicit forward simulation software package for population genetics and evolutionary biology. It is highly flexible, with a built-in scripting language, and has a cross-platfor...
Over in https://github.com/popsim-consortium/stdpopsim/pull/1342 we've run into an issue that if you pass `createLogFile` an absolute path in Windows it erroneously interprets it as a relative path. Ben says that >...
Consider the following script: ``` initialize() { initializeTreeSeq(); initializeMutationRate(1e-7); initializeMutationType("m1", 0.5, "f", 0.0); initializeGenomicElementType("g1", m1, 1.0); initializeGenomicElement(g1, 0, 99999); initializeRecombinationRate(1e-8); } 1 early() { sim.addSubpop("p1", 5); } 5 early() {...
The `relatedness()` function could be broadened to support providing the kinship coefficient between individuals, in addition to the current "coefficient of relationship". On the Eidos side this is easy; just...
hi! in slimgui (linux version) holding ctrl+shift while pressing either right or left to highlight a word includes the trailing blank space (when it's there). in other ide's like rstudio...
Hi! The title pretty much says it all: I think it would be really cool if the tag/tagF properties of individuals would be propagated to the individual metadata in the...
Find in SLiMgui should flash/highlight the found selection. This would make it easier to find visually. This is standard behavior on macOS, but the Qt folks don't plan to support...
This example is confusing because if the trees aren't coalesced, TMRCA means something different. Consider what happens if, say, on the left half of the chromosome, all the trees have...
It would be great to be able to ask SLiMgui to show additional spatial maps alongside a subpopulation’s display, with/without the individuals overlaid. The hard part here is figuring out...
Hi @molpopgen. The LTO stuff you contributed to SLiM in now out in the 3.2.1 release (thanks!), and a user sent me the following: > I had a little trouble...
This issue fills in for the part of #205 that is about not putting the null genomes into the tree sequence. The rest of #205 will be fixed now (making...