score_tree

Score a tree based on maximum likelihood

Fast maximum-likelihood phylogeny inference from noisy single-cell data using the 'ScisTree' algorithm by Yufeng Wu (2019) <doi:10.1093/bioinformatics/btz676>. 'scistreer' provides an 'R' interface and improves speed via 'Rcpp' and 'RcppParallel', making the method applicable to massive single-cell datasets (>10,000 cells).

Teng Gao

scistreer

Maximum-Likelihood Perfect Phylogeny Inference at Scale

Evan Biederstedt

Peter Kharchenko

Yufeng Wu

score_tree function

<dl><dt>tree</dt>
<dd>phylo object</dd>
<dt>P</dt>
<dd>genotype probability matrix</dd>
<dt>get_l_matrix</dt>
<dd>whether to compute the whole likelihood matrix</dd></dl>

Arguments

Score a tree based on maximum likelihood — score_tree

<dl>

<dt>tree</dt>
<dd>phylo object</dd>


<dt>P</dt>
<dd>genotype probability matrix</dd>


<dt>get_l_matrix</dt>
<dd>whether to compute the whole likelihood matrix</dd>

</dl>

score_tree: Score a tree based on maximum likelihood

Description

Usage

Value

Arguments

Examples