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Update Complex-Models.md
Testing whether it works.
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@@ -368,7 +368,7 @@ In the above command, all trees share the same GTR model, DNA frequencies and ga
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| `.treefile` | By using the MAST model, IQ-TREE will report multiple trees inside this file. Their topologies should match the input topologies in the newick file. |
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| `.iqtree` | All the estimated model parameters for each tree and the tree weights (i.e. proportions of the sites belonging to the tree and the model) are shown in this file. The order of the tree weights follows the order of the input topologies in the newick file. |
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Please note that, in any MAST model with more than one substitution model (i.e. models 1 - 5 in the previous table), the weights can only be interpreted as the linked weight of the model and the tree. So the weights are not unique to the tree. In other words, IQ-TREE will report the weights pertaining only to the trees for the model 6 in the previous table.
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Please note that, in any MAST model with more than one substitution model (i.e. models 1 - 5 in the previous table), the weights can only be interpreted as the linked weight of the model and the tree. So the weights are not unique to the tree. In other words, IQ-TREE will report the weights pertaining only to the trees for the model 6 in the previous table.
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[Brown et al. (2013)]: https://doi.org/10.1098/rspb.2013.1755
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[Lartillot and Philippe, 2004]: https://doi.org/10.1093/molbev/msh112

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