group_comparison_imd

Takes the results of imd_test() and returns group comparison p-values

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

group_comparison_imd function

<dl><dt>groupData</dt>
<dd>data frame that assigns sample names to groups</dd>
<dt>comparisons</dt>
<dd>dataframe that defiens the comparsions of interest</dd>
<dt>observed</dt>
<dd>matrix of number of observed counts</dd>
<dt>absent</dt>
<dd>matrix of number of observed counts</dd></dl>

Arguments

Author

Group comparisons for the g-test — group_comparison_imd

<dl>

<dt>groupData</dt>
<dd>data frame that assigns sample names to groups</dd>


<dt>comparisons</dt>
<dd>dataframe that defiens the comparsions of interest</dd>


<dt>observed</dt>
<dd>matrix of number of observed counts</dd>


<dt>absent</dt>
<dd>matrix of number of observed counts</dd>

</dl>

group_comparison_imd: Group comparisons for the g-test

Description

Usage

Value

Arguments

Author