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Hello,
I have been trying to use your workflow but keep running into a paste error, which I have assumed is due to an incorrectly formatted input file (likely the bootstrap file).
Error in 2:(c…
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```
Creating the tree model, 'treeModel'
taxon count = 71
tree height = 152.9034811119163
Bayesian skyline plot: 50 linear control points
Fatal exception: Dimension of population parameter mu…
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Hi,
I have a .trees file with 37 individuals from 4 populations generated in SLiM, which I have recapitated, simplified, and added mutations to. Now, I want to calculate the pairwise coalescent rat…
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We want to have an agent-based climbing approach for aligning pedigrees and trees.
This should include matching of pedigree nodes to coalescent edges.
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Hello,
Iam trying to run bootstrap analyses with astral on a large dataset (~14000 loci). Unfortunatly the run failed with error message from java which seems related to memory issue?
**To Reprodu…
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We can add an argument that specifies the number of lineages that can coalesce. Regular coalescence events would have a parameter equalling 2.
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I used the following command to obtain a frequency trajectory:
> java -jar -Xmx1G msms.jar -ms 2 1 -t 500 -r 399.9996 100000 -Sp 0.5 -N 100000 -SI 0.00625 1 0.1 -SA 10000 -SForceKeep -oSeqOff -oTrace…
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As discussed, it would be really useful to be able to compare (say) a ground truth tree sequence with unary-when-coalescent nodes left in, with the same version either inferred using tsinfer, or with …
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The TreeDistribution is a super class for all concrete TreeDistribution classes such as YuleModel and Coalescent. Instantiating TreeDistribution directly is an error, so it should be declared abstract…
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Hello,
We have been simulating phylogenetic networks with `SiPhyNetwork` in R, and are trying to use `hybrid-Lambda` to simulate gene trees on these. However, when using some of our level-2 network…