doNormalization

normalization method: (1) LBME: linear baseline normalization based on mean values;
(2) LBMD: linear baseline normalization based on median values; (3) PQN: probabilistic quotient normalization;
(4) QT: quantile normalization; (5) TIC: total ion current normalization.

method

Common mass spectrometry tools described in John Roboz (2013) <doi:10.1201/b15436>. It allows checking element
isotopes, calculating (isotope labelled) exact monoisitopic mass, m/z values and mass accuracy, and inspecting possible contaminant mass peaks,
examining possible adducts in electrospray ionization (ESI) and matrix-assisted laser desorption ionization (MALDI)
ion sources.

Yonghui Dong

MSbox

Mass Spectrometry Tools

doNormalization function

<dl><dt>x</dt>
<dd>sample ion intensity matrix</dd>
<dt>method</dt>
<dd>normalization method: (1) LBME: linear baseline normalization based on mean values;
(2) LBMD: linear baseline normalization based on median values; (3) PQN: probabilistic quotient normalization;
(4) QT: quantile normalization; (5) TIC: total ion current normalization.</dd></dl>

Arguments

perform normalization — doNormalization

<dl>

<dt>x</dt>
<dd>sample ion intensity matrix</dd>


<dt>method</dt>
<dd>normalization method: (1) LBME: linear baseline normalization based on mean values;
(2) LBMD: linear baseline normalization based on median values; (3) PQN: probabilistic quotient normalization;
(4) QT: quantile normalization; (5) TIC: total ion current normalization.</dd>

</dl>

doNormalization: perform normalization

Description

Usage

Value

Arguments

Examples