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As discussed with @ajacsherman et al. , we'd like to add support for matching names against phylogeny tips as published by:
Upham NS, Esselstyn JA, Jetz W. Inferring the mammal tree: Species-level …
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see the text file Avonet_traits.txt
There are columns Sequence Avibase.ID1 - do these help you get the phylogeny
I had to change some of the bird names to match the original data - see the av…
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**Improvement Description**
There are quite a few problems preventing phylogenies to be used in the qiime2 interface - namely because of the lack of tree tip filtering methods through the q2cli.
T…
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Need bootstrap support values, and the option to hide or display them at the nodes. Also ability to change font size on those values.
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**Describe the bug**
For simple math distributions like `dnExp` and `dnNorm`, the output of the `.probability()` and `.lnProbability()` methods can't be stored in a deterministic node. Interestingly,…
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We can keep this course short (1-day), covering only some general/basic concepts in phylogeny:
- What is a phylogeny
- MSA
- Phylogenetic inference
- Tree uncertainty (bootstrap)
- Bayesian inf…
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Hi all,
I am using Julia v1.1, just installed fresh today. I want to try to run some phylogenetic calculations in Julia and see how much faster they are than R.
However, I'm hitting a probl…
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Tree: https://github.com/naturalis/RiseAndFall/blob/master/tree_inference/results/mammals/mammals_phylogeny/mammals_phylogeny_corrected_iucn.nex
Can it really be true that no Vespertilionidae h…
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I should be in the toolshed.
Thank you!
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I was following the tutorial "Phylogeny Simulation and Diversification Rate Analysis with TESS" and it was going well until a point at which it stopped, returning the error "Error in if (max.progress …