Function to developers. It runs one EM step

Our method integrates information from all sequenced samples, thus avoiding loss of alleles due to low coverage. Moreover, it increases the statistical power to uncover sequencing or alignment errors <doi:10.1093/plphys/kiad191>.

Rafael Campos-Martin

RTIGER

HMM-Based Model for Genotyping and Cross-Over Identification

Sophia Schmickler

Manish Goel

Korbinian Schneeberger

Achim Tresch

dev function

<dl><dt>psi</dt>
<dd>list of psi probabilities.</dd>
<dt>rigidity</dt>
<dd>Rigidity value.</dd>
<dt>nstates</dt>
<dd>Number of states.</dd>
<dt>transition</dt>
<dd>transition matrix</dd>
<dt>start</dt>
<dd>initial probabilities</dd></dl>

Arguments

Function to developers. It runs one EM step — dev

<dl>

<dt>psi</dt>
<dd>list of psi probabilities.</dd>


<dt>rigidity</dt>
<dd>Rigidity value.</dd>


<dt>nstates</dt>
<dd>Number of states.</dd>


<dt>transition</dt>
<dd>transition matrix</dd>


<dt>start</dt>
<dd>initial probabilities</dd>

</dl>

dev: Function to developers. It runs one EM step

Description

Usage

Value

Arguments