penalty_BirgeMassart_shape1

<code>penalty_BirgeMassart_shape1</code> is the penalty shape defined by : 
pen_shape = (sqrt(K) + sqrt(2 * K * L_K))^2 with sum(exp(- K * L_K)) &lt; infty :
L_K = B + 1/K * log(model_complexity).

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

penalty_BirgeMassart_shape1 function

<dl><dt>K</dt>
<dd>the number of shifts</dd>
<dt>p</dt>
<dd>the dimension of the data</dd>
<dt>model_complexity</dt>
<dd>the complexity of the set of models with dimension K</dd>
<dt>B</dt>
<dd>a non-negative constant. Default is 0.1 
(as suggested in Cleynen &amp; Lebarbier 2015)</dd></dl>

Arguments

Penalty function type Birgé-Massart 1 — penalty_BirgeMassart_shape1

<dl>

<dt>K</dt>
<dd>the number of shifts</dd>


<dt>p</dt>
<dd>the dimension of the data</dd>


<dt>model_complexity</dt>
<dd>the complexity of the set of models with dimension K</dd>


<dt>B</dt>
<dd>a non-negative constant. Default is 0.1 
(as suggested in Cleynen &amp; Lebarbier 2015)</dd>

</dl>

penalty_BirgeMassart_shape1: Penalty function type Birgé-Massart 1

Description

Usage

Value

Arguments

Details

See Also