AbstractTopDownSet-class
                        The AbstractTopDownSet class
FragmentViews-class     The FragmentViews class
NCBSet-class            The NCBSet class
TopDownSet-class        The TopDownSet class
createExperimentsFragmentOptimisation
                        Create fragment optimisation experiment
createTngFusionMethFiles
                        Windows specific functions.
defaultMs1Settings      Settings for MS1/2 parameters.
expandMs1Conditions     Expand MS Conditions
readTopDownFiles        Read top-down files.
tds                     TopDownSet Example Data
topdownr-deprecated     Deprecated functions in topdownr
topdownr-package        Investigation of Fragmentation Conditions in
                        Top-Down Proteomics
validMs1Settings        List valid MS settings.
writeMethodXmls         Create Orbitrap Fusion Lumos method.xml files.
