Comments (2)
This looks right to me. It is a little hard to wrap my head around the details. To double check, is this an example of the current issue and what your changes will fix?
Under the current implementation, the node (1|234) uses PVs that correspond to Tree 1.
For the edge (1|234)->(24|3), the likelihood is computed with the parent edge (1234|5)->(1|234), but it should instead use the edge (0|1234)->(1|234).
from bito.
Yes, that is correct. Thanks for the clarifying example.
from bito.
Related Issues (20)
- Top-Pruning: PLVHandler Update
- Top-Pruning: ChoiceMap -- TreeMask Update and Build Trees HOT 3
- parsimony 1: perform Sankoff on trees HOT 2
- parsimony 2 Sankoff on DAG
- Top-Pruning: Top-Pruning Engine & Init on Tree HOT 2
- yet more iteration over unordered maps leading to inconsistent behavior
- TPEngine: Init DAG for Likelihood
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- TPEngine: Update after Add NNI
- TPEngine: Add Rescaling to Likelihood Computations
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from bito.