## ----style-knitr, eval=TRUE, echo=FALSE, results='asis'-------------------- BiocStyle::latex() ## ----options, results='hide', message=FALSE, eval=TRUE, echo=FALSE---------------------- library(breakpointRdata) options(width=90) ## ----eval=TRUE-------------------------------------------------------------------------- library(breakpointRdata) ?example_bams ?example_results ## ----eval=TRUE-------------------------------------------------------------------------- ## Example BAM files path <- system.file("extdata", "example_bams", package="breakpointRdata") files <- list.files(path, full.names=TRUE, pattern=".bam$") ## ----message=FALSE, eval=TRUE, echo=FALSE----------------------------------------------- files <- gsub(files, pattern=".*breakpointRdata", replacement="") ## ----eval=TRUE-------------------------------------------------------------------------- files ## ----eval=TRUE-------------------------------------------------------------------------- ## Example results path <- system.file("extdata", "example_results", package="breakpointRdata") files <- list.files(path, full.names=TRUE) ## ----message=FALSE, eval=TRUE, echo=FALSE----------------------------------------------- files <- gsub(files, pattern=".*breakpointRdata", replacement="") ## ----eval=TRUE-------------------------------------------------------------------------- files ## ----sessionInfo, results='asis', eval=TRUE--------------------------------------------- toLatex(sessionInfo())