Normalize Distribution of Intensities

Called internally by normSpectra(). Normalizes the distributions of the values in each spectrum in a set. Sorts the intensity data of each spectrum and evaluates the average intensity for each rank. The intensity values are then replaces with the averaged intensities, rearranged in their original order. Capable of analyzing 2-6 spectra at once.

norm_quantile(dat, mass_dat, spectra_cols)

Arguments

dat	The name of the spectral data frame, containing m/z data in the first column and spectral intensity data in subsequent columns.
mass_dat	A character string; the name of the column in dat containing the m/z data for the spectrum.
spectra_cols	A character string; the names of the column in dat containing the intensity data for the spectrs to be analyzed.

Value

Returns a new data frame including the original m/z data and normalized intensity data.

References

https://github.com/wesleyburr/subMaldi

Author

Kristen Yeh <kristenyeh@trentu.ca> Wesley Burr <wesleyburr@trentu.ca>

Examples

## Load sample dataset "Master.rda"
data("Master")

## Normalize the spectra "Before1" and "Before2"
# using the quantile method
ex <- normSpectra(dat = Master, mass_dat = "full_mz", method = "quantile",
                  spectra_cols = c("Before1", "Before2"))