feature_reduction: Feature reduction
In sipss/NIHSlcms: Signal processing of LC-MS metabolomics

Description Usage Arguments Value

feature_reduction is a function to reduce the feature table using the info from the clustering. A representative feature/ion is selected from each cluster discarding the rest of the feature of the same cluster (normally, the most intense one).

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feature_reduction(RC,
xdata,
loaded = TRUE)

`RC`	hclust object from the do_findmain function
`xdataImp`	data matrix with samples in rows and features in columns. The matrix should not include metadata or any columns without LC-MS data. Note that depending on the origins of the dataset, colnames might have a character starting with "X" avoiding a number in the first character (see `loaded = TRUE`)
`loaded`	if matrix is loaded into R, an "X" will be added to each colname. In this case, set `loaded = TRUE`.

A list containing: $singletons: data frame with features that has not been clustered. $xdata_mol_ions: data frame with the representative ions of each cluster $xdata_reduced: data frame with the reduced dataset (singletons + representative ions of each cluster)

sipss/NIHSlcms documentation built on May 13, 2021, 6:19 p.m.