annotate.protein_id	annotate.protein_id
BiblioSpec	read.bibliospec
bibliospec	read.bibliospec
cdsw	cdsw
generate.consensus	specLSet-class
generate.consensus,specLSet-method	specLSet-class
generateDynamicSwathWindow	cdsw
genSwathIonLib	genSwathIonLib
getProteinPeptideTable	specLSet-class
getProteinPeptideTable,specLSet-method	specLSet-class
ionlibrary	specLSet-class
ionlibrary,specLSet-method	specLSet-class
iRT	iRTpeptides
irt	iRTpeptides
iRTpeptides	iRTpeptides
merge.specLSet	specLSet-class
merge.specLSet,specLSet-method	specLSet-class
MRM	genSwathIonLib
ms1.p2069	ms1.p2069
peptideStd	peptideStd
peptideStd.redundant	peptideStd
plot	specLSet-class
plot,ANY-method	plot-methods
plot,specL-method	specL-class
plot,specL-methods	plot-methods
plot,specLSet-method	specLSet-class
plot,specLSet-methods	plot-methods
plot-methods	plot-methods
plot.psm	read.bibliospec
plot.psmSet	read.bibliospec
read.bibliospec	read.bibliospec
rt.input	specLSet-class
rt.input,specLSet-method	specLSet-class
rt.normalized	specLSet-class
rt.normalized,specLSet-method	specLSet-class
show,ANY-method	show-methods
show,specL-method	specL-class
show,specLSet-method	specLSet-class
show-methods	show-methods
Skyline	read.bibliospec
skyline	read.bibliospec
specL	genSwathIonLib
specL-class	specL-class
specLSet-class	specLSet-class
summary,specLSet-method	specLSet-class
summary.psmSet	read.bibliospec
SWATH	genSwathIonLib
swath	genSwathIonLib
write.spectronaut	write.spectronaut-methods
write.spectronaut,ANY-method	write.spectronaut-methods
write.spectronaut,specL-method	specL-class
write.spectronaut,specL-methods	write.spectronaut-methods
write.spectronaut,specLSet-method	specLSet-class
write.spectronaut,specLSet-methods	write.spectronaut-methods
