get_data_scale

This function returns current data scale which may be different from the
original data scale (if <code>edata_transform</code> was used).

Provides functionality for quality control processing and statistical analysis of mass spectrometry (MS) omics data, in particular proteomic (either at the peptide or the protein level), lipidomic, and metabolomic data, as well as RNA-seq based count data and nuclear magnetic resonance (NMR) data. This includes data transformation, specification of groups that are to be compared against each other, filtering of features and/or samples, data normalization, data summarization (correlation, PCA), and statistical comparisons between defined groups. Implements methods described in: Webb-Robertson et al. (2014) <doi:10.1074/mcp.M113.030932>. Webb-Robertson et al. (2011) <doi:10.1002/pmic.201100078>. Matzke et al. (2011) <doi:10.1093/bioinformatics/btr479>. Matzke et al. (2013) <doi:10.1002/pmic.201200269>. Polpitiya et al. (2008) <doi:10.1093/bioinformatics/btn217>. Webb-Robertson et al. (2010) <doi:10.1021/pr1005247>.

Lisa Bramer

pmartR

Panomics Marketplace - Quality Control and Statistical Analysis
for Panomics Data

Kelly Stratton

Daniel Claborne

Evan Glasscock

Rachel Richardson

David Degnan

Evan Martin

get_data_scale function

<dl><dt>omicsObject</dt>
<dd>an object of the class 'pepData', 'proData', 'metabData',
'lipidData', 'nmrData', 'statRes', or 'trelliData', usually created by
<code>as.pepData</code>, <code>as.proData</code>,
<code>as.metabData</code>, <code>as.lipidData</code>,
<code>as.nmrData</code>, <code>imd_anova</code>, or
<code>as.trelliData</code> respectively.</dd></dl>

Arguments

Fetch the current data scale — get_data_scale

<dl>

<dt>omicsObject</dt>
<dd>an object of the class 'pepData', 'proData', 'metabData',
'lipidData', 'nmrData', 'statRes', or 'trelliData', usually created by
<code>as.pepData</code>, <code>as.proData</code>,
<code>as.metabData</code>, <code>as.lipidData</code>,
<code>as.nmrData</code>, <code>imd_anova</code>, or
<code>as.trelliData</code> respectively.</dd>

</dl>

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get_data_scale: Fetch the current data scale

Description

Usage

Value

Arguments