NormLFC

Computes the standard, normalized log2 fold change with given pseudocounts

Ratios of count data such as obtained from RNA-seq are modelled
using Bayesian statistics to derive posteriors for effects sizes. This
approach is described in Erhard & Zimmer (2015) <doi:10.1093/nar/gkv696>
and Erhard (2018) <doi:10.1093/bioinformatics/bty471>.

Florian Erhard

Log Fold Change Distribution Tools for Working with Ratios of
Counts

NormLFC function

<dl><dt>A</dt>
<dd>Vector of counts from condition A</dd>
<dt>B</dt>
<dd>Vector of counts from condition B</dd>
<dt>pseudo</dt>
<dd>Vector of length 2 of the pseudo counts</dd>
<dt>normalizeFun</dt>
<dd>Function to normalize the obtained effect sizes</dd></dl>

Arguments

Standard LFC effect size estimator — NormLFC

<dl>

<dt>A</dt>
<dd>Vector of counts from condition A</dd>


<dt>B</dt>
<dd>Vector of counts from condition B</dd>


<dt>pseudo</dt>
<dd>Vector of length 2 of the pseudo counts</dd>


<dt>normalizeFun</dt>
<dd>Function to normalize the obtained effect sizes</dd>

</dl>

NormLFC: Standard LFC effect size estimator

Description

Usage

Value

Arguments

Examples