## ----cache-knitr, echo=FALSE---------------------------------------------
knitr::opts_chunk$set(cache=TRUE)

## ----ChIPQC, eval=FALSE--------------------------------------------------
#  experiment <- ChIPQC(samples)
#  ChIPQCreport(experiment)

## ----ChIPpeakAnno, eval=FALSE--------------------------------------------
#  library(ChIPpeakAnno)
#  ## ...
#  annotated <- annotatePeakInBatch(peaks,
#      AnnotationData=annotation)

## ----DiffBind, eval=FALSE------------------------------------------------
#  library(DiffBind)
#  tamoxifen = dba(sampleSheet="tamoxifen.csv")
#  tamoxifen = dba.count(tamoxifen)
#  tamoxifen = dba.contrast(tamoxifen,
#      categories=DBA_CONDITION)
#  tamoxifen = dba.analyze(tamoxifen)
#  tamoxifen.DB = dba.report(tamoxifen)