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metaboData provides raw and processed example metabolomics data sets. This document concisely outlines how to access the data sets and the meta information provided.
Load the library:
The example data sets are stored remotely in the releases of the GitHub repository and accessed using the piggyback package. The available data sets can be viewed using:
The available metabolomic techniques can be returned using:
The available data sets for a given metabolomic technique can be returned using:
A particular data set can be downloaded for use with:
By default these will be stored within the library location.
This behaviour can be adjusted using the
File paths for data files within a given data set can be returned using the following:
files <- filePaths( techniques(), dataSets(techniques()))
An experimental description can be retrieved for a given experiment of a given metabolomic technique using:
experimentDescription <- description( techniques(), dataSets(techniques()))
Run information can be retrieved for a given experiment of a given metabolomic technique using:
info <- runinfo( techniques(), dataSets(techniques())) head(info)
runinfo, if the specified data set is not available locally, by default the user will be prompted to consent to downloading the data.
ask = FALSE argument can be used to override this behaviour.
abr1 FIE-MS data set from the FIEmspro package is also available via lazy-load.
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