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Hi,
I am using ASTRAL-III to make a species tree for a set of taxa. I ran two versions of this tree, one in which three species are considered distinct between two populations (they are currently c…
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Hello!
I am trying to run heist using a input tree already in coalescent unit but I am getting the following error:
Traceback (most recent call last):
File "/home/ghfa/progs/miniconda3/bin/he…
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Suggested by reviewer of [1]
## References
Bilderbeek, Richel JC, and Rampal S. Etienne. "babette: BEAUti 2, BEAST2 and Tracer for R." bioRxiv (2018): 271866.
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At the moment, in tsinfer, we don’t remove unary regions of nodes even if the nodes are unary everywhere. I.e. we have nodes which are coalescent in places and unary in other places, but also some ent…
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For example:
```R
models
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I used the "tree" option with backbone.nwk and the alignments of 12 genes including 2538 species. I always got error message "In cluster species/output/udance/3, 1 gene tree(s) with lower than 0.80 me…
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Use `msprime.DemographyDebugger.coalescence_rate_trajectory()`.
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I came across a discrepancy between the `tskit` classification of tree topologies and the Kingman coalescent. If genealogies are rooted, bifurcating trees with nodes ordered in time, then there are 18…
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A thing that caught me by surprise: now, if you simulate a chunk of a contig, you'll get 'missing data' outside that contig. This is represented as, basically, "no trees there". However, this will hav…
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In Splines branch, spline_builder_batched.hpp file, the object spline_tr is a buffer with the same size as spline (corresponding to the input/output). It implies that half memory has to be filled with…