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muma (version 1.4)

Metabolomics Univariate and Multivariate Analysis

Description

Preprocessing of high-throughput data (normalization and scalings); Principal Component Analysis with help tool for choosing best-separating principal components and automatic testing for outliers; automatic univariate analysis for parametric and non-parametric data, with generation of specific reports (volcano and box plots); partial least square discriminant analysis (PLS-DA); orthogonal partial least square discriminant analysis (OPLS-DA); Statistical Total Correlation Spectroscopy (STOCSY); Ratio Analysis Nuclear Magnetic Resonance (NMR) Spectroscopy (RANSY).

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Version

Install

install.packages('muma')

Monthly Downloads

16

Version

1.4

License

GPL-2

Maintainer

Edoardo Gaude

Last Published

December 3rd, 2012

Functions in muma (1.4)

volcano

Volcano plots
stocsy.1d

Statistical TOtal Correlation SpectroscopY - monodimensional
pvalues

P-values reporting
work.dir

Create a working directory
Plot.plsda

PLS plots
ransy

Ratio Analysis NMR SpectroscopY
shapiro

Shapiro Wilk's test
explore.data

Preprocessing and principal component analysis of metabolomic data
MetaBc

Metabolomics data of B cells
chose.driver

List variables in the dataset
outlier

Test for Outlier
oplsda

Orthogonal Partial Least Sqaure Discriminant Analysis
stocsy

Statistical TOtal Correlation SpectroscopY
ostocsy

OSC Statistical TOtal Correlation SpectroscopY
welch

Welch's T test
muma-package

Metabolomics Univariate and Multivariate Analyses
wmw

Wilcoxon-Mann Whitney U test
Plot.pca.score

Plot PCA Score Plot
Plot.pca

principal component analysis plotting
Plot.pca.pvalues

PCA Loading plot color-coded for univariate significance
Plot.pca.loading

Plot PCA Loading Plot
col.pvalues

Color-coding based on significance
box.plot

Generate box plots
plsda

Partial Least Square Discriminant Analysis
univariate

Univariate statistical analysis