segmentation.OU.specialCase.same_shifts

<code>segmentation.OU.specialCase.same_shifts</code> keeps the same shifts position,
and optimize the sum of costs using function 
<code>best_scenario</code>

internal

Implementation of the automatic shift detection method for
Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on
phylogenies. Some tools to handle equivalent shifts configurations are also
available. See Bastide et al. (2017) <doi:10.1111/rssb.12206> and
Bastide et al. (2018) <doi:10.1093/sysbio/syy005>.

Paul Bastide

PhylogeneticEM

Automatic Shift Detection using a Phylogenetic EM

Mahendra Mariadassou

segmentation.OU.specialCase.same_shifts function

<dl><dt>phylo</dt>
<dd>a phylogenetic tree</dd>
<dt>shifts_old</dt>
<dd>the previous list of shifts (only position is used)</dd>
<dt>conditional_law_X</dt>
<dd>moments of the conditional law of X given Y, result
of function <code>compute_M.OU.specialCase</code></dd>
<dt>selection.strength</dt>
<dd>the selection strength</dd></dl>

Arguments

Segmentation in the OU special case, conserving the same shifts
 position. — segmentation.OU.specialCase.same_shifts

<dl>

<dt>phylo</dt>
<dd>a phylogenetic tree</dd>


<dt>shifts_old</dt>
<dd>the previous list of shifts (only position is used)</dd>


<dt>conditional_law_X</dt>
<dd>moments of the conditional law of X given Y, result
of function <code>compute_M.OU.specialCase</code></dd>


<dt>selection.strength</dt>
<dd>the selection strength</dd>

</dl>

segmentation.OU.specialCase.same_shifts: Segmentation in the OU special case, conserving the same shifts position.

Description

Usage

Value

Arguments

Details