plotcn

plot PMD KEGG network for certain compounds and output network average distance and degree

Paired mass distance (PMD) analysis proposed in Yu, Olkowicz and Pawliszyn (2018) <doi:10.1016/j.aca.2018.10.062> and PMD based reactomics analysis proposed in Yu and Petrick (2020) <doi:10.1038/s42004-020-00403-z> for gas/liquid chromatography–mass spectrometry (GC/LC-MS) based non-targeted analysis. PMD analysis including GlobalStd algorithm and structure/reaction directed analysis. GlobalStd algorithm could found independent peaks in m/z-retention time profiles based on retention time hierarchical cluster analysis and frequency analysis of paired mass distances within retention time groups. Structure directed analysis could be used to find potential relationship among those independent peaks in different retention time groups based on frequency of paired mass distances. Reactomics analysis could also be performed to build PMD network, assign sources and make biomarker reaction discovery. GUIs for PMD analysis is also included as 'shiny' applications.

Miao YU

Paired Mass Distance Analysis for GC/LC-MS Based Non-Targeted
Analysis and Reactomics Analysis

plotcn function

<dl><dt>formula</dt>
<dd>Chemical formula</dd>
<dt>name</dt>
<dd>Compound name</dd>
<dt>pmd</dt>
<dd>specific paired mass distances</dd></dl>

Arguments

plot PMD KEGG network for certain compounds and output network average distance and degree — plotcn

<dl>

<dt>formula</dt>
<dd>Chemical formula</dd>


<dt>name</dt>
<dd>Compound name</dd>


<dt>pmd</dt>
<dd>specific paired mass distances</dd>

</dl>

plotcn: plot PMD KEGG network for certain compounds and output network average distance and degree

Description

Usage

Arguments

Examples