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hi,
I am testing the ancestor reconstruction method using simulated sequences for a given tree and given evolutionary distances. I would like to estimate the reconstruction using those given distance…
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Hi,
Using PhyML 3.2.20160428, in the *_phyml_ancestral_seq output file, I am getting lots of marginal state probabilities greater than one. Used this command:
phyml -i my.phy -d aa -m LG -f e -v 0 …
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If you set up an XML in BEAUTi with partitions whose patterns elements are then merged (e.g. SRD06) and ancestral state reconstruction for the nucleotide codes (see attached), you get a meaningless sh…
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Just recently updated to version 1.8.3 and an XML
![8 ha_beast_e_phylogeo_strict xml](https://cloud.githubusercontent.com/assets/2855130/12304025/7f87ea44-b9fb-11e5-9d1e-1e915477e1c3.png)
file that …
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Hello,
I wanted to ask for clarification regarding which model fit should be used for ancestral sequence reconstruction. To give a little background, I would like to 'replicate' datamonkey visualizati…
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```
What steps will reproduce the problem?
1. Use BEAUTi to make an XML file with ancestral state reconstruction at all
ancestors (for the nucleotide sequence) with two codon position partitions.
2. …
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```
What steps will reproduce the problem?
1. Use BEAUTi to make an XML file with ancestral state reconstruction at all
ancestors (for the nucleotide sequence) with two codon position partitions.
2. …
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Originally reported on Google Code with ID 636
```
What steps will reproduce the problem?
1. Use BEAUTi to make an XML file with ancestral state reconstruction at all ancestors
(for the nucleotide se…
-
```
What steps will reproduce the problem?
1. Use BEAUTi to make an XML file with ancestral state reconstruction at all
ancestors (for the nucleotide sequence) with two codon position partitions.
2. …
-
```
What steps will reproduce the problem?
1. Use BEAUTi to make an XML file with ancestral state reconstruction at all
ancestors (for the nucleotide sequence) with two codon position partitions.
2. …