l_lnpois

calculate joint likelihood of a PLN model

Haplotype-aware Hidden Markov Model for RNA (HaHMMR) is a method for detecting copy number variations (CNVs) from bulk RNA-seq data. Additional examples, documentations, and details on the method are available at <https://github.com/kharchenkolab/hahmmr/>.

Teng Gao

hahmmr

Haplotype-Aware Hidden Markov Model for RNA

Evan Biederstedt

Peter Kharchenko

l_lnpois function

<dl><dt>Y_obs</dt>
<dd>numeric vector Gene expression counts</dd>
<dt>lambda_ref</dt>
<dd>numeric vector Reference expression levels</dd>
<dt>d</dt>
<dd>numeric Total library size</dd>
<dt>mu</dt>
<dd>numeric Global mean expression</dd>
<dt>sig</dt>
<dd>numeric Global standard deviation of expression</dd>
<dt>phi</dt>
<dd>numeric Fold change of expression</dd></dl>

Arguments

calculate joint likelihood of a PLN model — l_lnpois

<dl>

<dt>Y_obs</dt>
<dd>numeric vector Gene expression counts</dd>


<dt>lambda_ref</dt>
<dd>numeric vector Reference expression levels</dd>


<dt>d</dt>
<dd>numeric Total library size</dd>


<dt>mu</dt>
<dd>numeric Global mean expression</dd>


<dt>sig</dt>
<dd>numeric Global standard deviation of expression</dd>


<dt>phi</dt>
<dd>numeric Fold change of expression</dd>

</dl>

l_lnpois: calculate joint likelihood of a PLN model

Description

Usage

Value

Arguments

Examples