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SymmeTREE FAQs Please contact us if your question is not addressed below. |
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| 2 of 4 | Q: I used SymmeTREE to test for the presence of significant among-lineage diversification rate variation in my study tree. However, the results of my analysis include zero P-values for some/all of the whole-tree statistics. What's the deal? |
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| A. A zero P-value may seem to be cause for alarm. However, this result merely indicates that the value of the statistic calculated for the observed tree (your study tree) was more extreme than values calculated for any of the simulated ERM trees used to approximate the null distribution (i.e., those generated by Monte Carlo simulation). In other words, your tree has very high levels of diversification rate variation. | ||
Q: I used SymmeTREE to locate significant diversification rate shifts in my study tree, but I'm not sure how to interpret the output: how do I localize the shifts to the branches in my tree? |
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| A. Open your data file in a MacClade or Mesquite tree window. First click the 'rotate to lean right' tool on the root node, and then select 'show branch numbers' from the 'display menu'. These node numbers correspond to those in the row of the output file labelled 'paup#'. For each node number, several statistics are reported, including P-values for each delta statistic ('P_Delta1', 'P_Delta2'). For more details, refer to pages 31-32 and 37-39 of the user manual. | ||
