## ----style, echo = FALSE, results = 'asis', message=FALSE---------------------
BiocStyle::markdown()

## ----lib----------------------------------------------------------------------
library(PTMods)

## ----loaddata, echo = FALSE---------------------------------------------------
data(aminoacids)
data(modifications)
data(elements)

## ----install, eval = FALSE----------------------------------------------------
# if (!require("BiocManager", quietly = TRUE))
#     install.packages("BiocManager")
# 
# BiocManager::install("PTMods")

## ----install2o, eval = FALSE--------------------------------------------------
# BiocManager::install("RforMassSpectrometry/PTMods")

## ----modifications------------------------------------------------------------
data(modifications)
head(modifications)

## ----aminoacids---------------------------------------------------------------
data(aminoacids)
head(aminoacids)

## ----elements-----------------------------------------------------------------
data(elements)
head(elements)

## ----convertAnnotion----------------------------------------------------------
convertAnnotation("M[Oxidation]PEPTIDE", convertToStyle = "deltaMass")
convertAnnotation("M[Oxidation]PEPTIDE", convertToStyle = "unimodId")
convertAnnotation("M[+15.995]PEPTIDE", convertToStyle = "name")

## ----si-----------------------------------------------------------------------
sessionInfo()