muma: Metabolomics Univariate and Multivariate Analysis

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).

Author
Edoardo Gaude, Francesca Chignola, Dimitrios Spiliotopoulos, Silvia Mari, Andrea Spitaleri and Michela Ghitti
Date of publication
2012-12-03 18:20:37
Maintainer
Edoardo gaude <egaude541@gmail.com>
License
GPL-2
Version
1.4

View on CRAN

Man pages

box.plot
Generate box plots
chose.driver
List variables in the dataset
col.pvalues
Color-coding based on significance
explore.data
Preprocessing and principal component analysis of metabolomic...
MetaBc
Metabolomics data of B cells
muma-package
Metabolomics Univariate and Multivariate Analyses
oplsda
Orthogonal Partial Least Sqaure Discriminant Analysis
ostocsy
OSC Statistical TOtal Correlation SpectroscopY
outlier
Test for Outlier
Plot.pca
principal component analysis plotting
Plot.pca.loading
Plot PCA Loading Plot
Plot.pca.pvalues
PCA Loading plot color-coded for univariate significance
Plot.pca.score
Plot PCA Score Plot
Plot.plsda
PLS plots
plsda
Partial Least Square Discriminant Analysis
pvalues
P-values reporting
ransy
Ratio Analysis NMR SpectroscopY
shapiro
Shapiro Wilk's test
stocsy
Statistical TOtal Correlation SpectroscopY
stocsy.1d
Statistical TOtal Correlation SpectroscopY - monodimensional
univariate
Univariate statistical analysis
volcano
Volcano plots
welch
Welch's T test
wmw
Wilcoxon-Mann Whitney U test
work.dir
Create a working directory

Files in this package

muma
muma/MD5
muma/DESCRIPTION
muma/man
muma/man/plsda.Rd
muma/man/pvalues.Rd
muma/man/volcano.Rd
muma/man/stocsy.1d.Rd
muma/man/Plot.pca.Rd
muma/man/ostocsy.Rd
muma/man/shapiro.Rd
muma/man/univariate.Rd
muma/man/wmw.Rd
muma/man/welch.Rd
muma/man/chose.driver.Rd
muma/man/explore.data.Rd
muma/man/muma-package.Rd
muma/man/col.pvalues.Rd
muma/man/Plot.plsda.Rd
muma/man/stocsy.Rd
muma/man/oplsda.Rd
muma/man/MetaBc.Rd
muma/man/ransy.Rd
muma/man/outlier.Rd
muma/man/Plot.pca.pvalues.Rd
muma/man/Plot.pca.score.Rd
muma/man/Plot.pca.loading.Rd
muma/man/box.plot.Rd
muma/man/work.dir.Rd
muma/R
muma/R/Plot.plsda.R
muma/R/outlier.R
muma/R/shapiro.R
muma/R/Plot.pca.pvalues.R
muma/R/box.plot.R
muma/R/plsda.R
muma/R/col.pvalues.R
muma/R/Plot.pca.loading.R
muma/R/oplsda.R
muma/R/Plot.pca.score.R
muma/R/stocsy.1d.R
muma/R/ransy.R
muma/R/univariate.R
muma/R/pvalues.R
muma/R/Plot.pca.R
muma/R/welch.R
muma/R/wmw.R
muma/R/stocsy.R
muma/R/explore.data.R
muma/R/work.dir.R
muma/R/volcano.R
muma/R/ostocsy.R
muma/R/chose.driver.R
muma/NAMESPACE
muma/data
muma/data/MetaBc.rda