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Commit 41b2ef84 authored by Alexis CRISCUOLO's avatar Alexis CRISCUOLO :black_circle:
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2.0

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...@@ -134,11 +134,11 @@ Launch _JolyTree_ without option to read the following documentation: ...@@ -134,11 +134,11 @@ Launch _JolyTree_ without option to read the following documentation:
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| correction | formula | options | notes | | correction | formula | options | notes |
|:-----------------|:------------------------------------------------------------------------|:--------------------------------------------------------------|:--------------------------------------------------------------------------------------------------| |:-----------------|:------------------------------------------------------------------------|:------------------------------------------------------|:--------------------------------------------------------------------------------------------------|
| none | _d_ = _p_ | `-c 1 -a $a` with any `$a` > 0 | unaccurate estimate when _p_ > 0.1 | | none | _d_ = _p_ | `-c 1 -a $a` with any `$a` > 0 | unaccurate estimate when _p_ > 0.1 |
| Poisson | _d_ = - log<sub>_e_</sub>(1 - _p_) | `-a 0` (use `-c 1` to force Poisson correction) | default _p_-distance transformation of _mash_ | | Poisson | _d_ = - log<sub>_e_</sub>(1 - _p_) | `-a 0` (use `-c 1` to force Poisson correction) | default transformation of _mash_ |
| F81/EI | _d_ = -_b_<sub>1</sub> log<sub>_e_</sub>(1 - _p_/_b_<sub>2</sub>) | `-a 0` (use `-c 0` to force F81/EI correction) | formula (4) in [Tamura and Kumar (2002)](https://academic.oup.com/mbe/article/19/10/1727/1258975) | | F81/EI | _d_ = -_b_<sub>1</sub> log<sub>_e_</sub>(1 - _p_/_b_<sub>2</sub>) | `-a 0` (use `-c 0` to force F81/EI correction) | formula (4) in [Tamura and Kumar (2002)](https://academic.oup.com/mbe/article/19/10/1727/1258975) |
| F81/EI + &Gamma; | _d_ = -_ab_<sub>1</sub>[(1 - _p_/_b_<sub>2</sub>)<sup>-1/_a_</sup> - 1] | `-a $a` with specified &Gamma; shape parameter (default: 1.5) | formula (3) in Criscuolo (2020; _submitted_) | | F81/EI + &Gamma; | _d_ = -_ab_<sub>1</sub>[(1 - _p_/_b_<sub>2</sub>)<sup>-1/_a_</sup> - 1] | `-a $a` to set &Gamma; shape parameter (default: 1.5) | formula (3) in Criscuolo (2020; _submitted_) |
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