pre_imdanova_melt

This function creates a melted version of e_data, grouped by edata_id and
group designation, for future use of implementing a IMD_ANOVA filter

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

pre_imdanova_melt function

<dl><dt>e_data</dt>
<dd>\(p \times n\) data.frame, where \(p\) is the number of
peptides, proteins, lipids, metabolites, or accessions and \(n\) is the
number of samples</dd>
<dt>groupDF</dt>
<dd>data frame created by <code>group_designation</code> with columns
for the sample identifier and the designated group.</dd>
<dt>samp_id</dt>
<dd>character string specifying the name of the column containing
the sample identifiers in <code>groupDF</code>.</dd></dl>

Arguments

Author

Create a Melted and Grouped Version of e_data for IMD_ANOVA filter — pre_imdanova_melt

<dl>

<dt>e_data</dt>
<dd>\(p \times n\) data.frame, where \(p\) is the number of
peptides, proteins, lipids, metabolites, or accessions and \(n\) is the
number of samples</dd>


<dt>groupDF</dt>
<dd>data frame created by <code>group_designation</code> with columns
for the sample identifier and the designated group.</dd>


<dt>samp_id</dt>
<dd>character string specifying the name of the column containing
the sample identifiers in <code>groupDF</code>.</dd>

</dl>

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pre_imdanova_melt: Create a Melted and Grouped Version of e_data for IMD_ANOVA filter

Description

Usage

Value

Arguments

Author