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https://github.com/stanstrup/mwtabR
An R package that downloads and parses mwtab data from Metabolomics Workbench studies. Downloaded files are converted into R lists.
Proper citation: mwtabR (RRID:SCR_014677) Copy
https://github.com/dgrapov/CTSgetR
R interface to Chemical Translation Service which provides translation between chemical and biological database identifiers.
Proper citation: CTSgetR (RRID:SCR_014672) Copy
https://imdevsoftware.wordpress.com/imdev/
A software application of RExcel that integrates R into Excel as an embedded additon for omics tasks and analysis. It can be used specifically for tasks concerning multivariate data visualization, exploration, and analysis. imDev has interactive modules for dimensional reduction, prediction, feature selection, analysis of correlation, and generation of networked structures, all of which provide an integrated environment for systems level analysis of multivariate data.
Proper citation: imDEV (RRID:SCR_014674) Copy
http://stat.ethz.ch/R-manual/R-patched/library/stats/html/hclust.html
R documentation for hierarchical cluster analysis on a set of dissimilarities for n objects. Each object is assigned to its own cluster, which an algorithm proceeds through iteratively. Two of the most similar clusters are joined at each stage until there is a single cluster. Distances between clusters are recomputed at each stage by the Lance–Williams dissimilarity update formula according to the particular clustering method being used. Clustering methods include: Ward's minimum variance method, complete linkage method, and single linkage method.
Proper citation: Hierarchical Clustering (RRID:SCR_014673) Copy
http://stat.ethz.ch/R-manual/R-patched/library/stats/html/prcomp.html
R documentation for a function that performs a principal components analysis on a given data matrix and returns the results as an object of class prcomp.
Proper citation: Principal Components Analysis (RRID:SCR_014676) Copy
http://stat.ethz.ch/R-manual/R-devel/library/MASS/html/lda.html
R documentation for a function to perform linear discriminant analysis; specifically, to detect if the within-class covariance matrix is singular.
Proper citation: Linear Discriminant Analysis (RRID:SCR_014675) Copy
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