exportBedGraph: Export aligned reads into a bedgraph
In daewoooo/primatR: What the Package Does (TODO)

exportBedGraph

R Documentation

Export aligned reads into a bedgraph

This function takes as an input aligned reads in BAM and exports them into a UCSC formated bedgraph.

exportBedGraph(
  bamfile,
  outputdirectory = ".",
  mapq = 10,
  filt.flag = 0,
  min.read.len = 5000,
  blacklist = NULL
)

`bamfile`	Bamfile with aligned reads.
`outputdirectory`	A directory to save constructed bedgraphs.
`mapq`	Minimum mapping quality when importing from BAM files.
`filt.flag`	Filter out reads with given flag.
`min.read.len`	Minimum length of mapped reads to import.
`blacklist`	A `GRanges-class` object of regions to exclude reads from.