adductSpec-class: AdductSpec class
In JosieLHayes/adductomicsR: Processing of adductomic mass spectral datasets

Description Usage Format Value Slots Methods Author(s)

The AdductSpec class contains dynamic noise filtered composite MS/MS spectra and their corresponding MS1 scan isotopic patterns. Produced by adductSpecGen() from mzXML files.

An object of class NULL of length 0.

dynamic noise filtered composite MS/MS spectra and their corresponding MS1 scan isotopic patterns

adductMS2spec: list of adduct MS2 spectras
groupMS2spec: list of group MS2 spectras
metaData: dataframe of metadata from mzXML
aaResSeqs: matrix of amino acid sequences
specPepMatches: list of spectra peptide matches
specPepCompSpec: list of comp spectra peptide matches
sumAdductType: dataframe of adduct types
Peptides: dataframe of peptides under study
rtDevModels: list of rtDevModels
targetTable: dataframe target table
file.paths: character of file path
Parameters: dataframe of parameters

c: signature(object = "AdductSpec"): Concatenates the spectra information.
Specfile.paths: signature(object = "AdductSpec"): Accesses the file paths.
adductMS2spec: signature(object = "AdductSpec"): Accesses the adduct MS2 spectral information.
metaData: signature(object = "AdductSpec"): Accesses the scan metadata.
Parameters: signature(object = "AdductSpec"): Accesses the user parameters.
groupMS2spec: signature(object = "AdductSpec"): Accesses the spectral information for the grouped MS2 spectra.
rtDevModels: signature(object = "AdductSpec"): Accesses the retention time deviation models.
sumAdductType: signature(object = "AdductSpec"): Accesses the total adduct types.
Peptides: signature(object = "AdductSpec"): Accesses the peptide information.
specPepMatches: signature(object = "AdductSpec"): Accesses the peptide matches in the spectra.