cultures_data

<p>A <code>mpactr</code> R6 class object of contining a feature table and associated sample
metadata.</p>

datasets

An 'R' implementation of the 'python' program Metabolomics Peak Analysis Computational Tool ('MPACT') (Robert M. Samples, Sara P. Puckett, and Marcy J. Balunas (2023) <doi:10.1021/acs.analchem.2c04632>). Filters in the package serve to address common errors in tandem mass spectrometry preprocessing, including: (1) isotopic patterns that are incorrectly split during preprocessing, (2) features present in solvent blanks due to carryover between samples, (3) features whose abundance is greater than user-defined abundance threshold in a specific group of samples, for example media blanks, (4) ions that are inconsistent between technical replicates, and (5) in-source fragment ions created during ionization before fragmentation in the tandem mass spectrometry workflow.

Patrick Schloss

mpactr

Correction of Preprocessed MS Data

Allison Mason

Gregory Johnson

cultures_data function


<div class="section" id="culture-data">
<h3><code>culture_data</code></h3><p></p><p>
</p><p>A <code>mpactr</code> with 2 attributes:</p><dl>
<dt>peak_table</dt>
<dd><p>A feature table of class <code>data.table</code></p></dd><p></p><p><dt>meta_data</dt>
<dd><p>A <code>data.table</code> with associated sample metadata</p></dd></p><p>
</p></dl><p></p><p></p></div>


Format

LC-MS/MS sample data — cultures_data


<div class='section' id='culture-data'>
<h3><code>culture_data</code></h3>


<p>A <code>mpactr</code> with 2 attributes:</p><dl>
<dt>peak_table</dt>
<dd><p>A feature table of class <code>data.table</code></p></dd>

<dt>meta_data</dt>
<dd><p>A <code>data.table</code> with associated sample metadata</p></dd>


</dl>

</div>


cultures_data: LC-MS/MS sample data

Description

Usage

Arguments

Value

Format

`culture_data`