makeFragLengthHistPlot: makeFragLengthHistPlot
In ge11232002/NGS: Next Generation Sequencing Data Analysis

Description Usage Arguments Value Author(s) See Also Examples

Make the histogram distribution of fragment lengths estimated from paired-end reads.

1 2	makeFragLengthHistPlot(bamFiles, fragSizeMax = 1000L, mc.cores = getThreads())

`bamFiles`	The `character`() filenames of input bam files.
`fragSizeMax`	The `integer`(1) of maximal fragment size to plot.
`mc.cores`	The number of threads to use. By default, we use a internal function `NGS:::getThreads` to decide.

A ggplot object.

Ge Tan

makeAlignmentCountBarPlot

1
2
3

  bamfile <- system.file("extdata", "ex1.bam", package="Rsamtools",
                         mustWork=TRUE)
  makeFragLengthHistPlot(bamfile, fragSizeMax=500L, mc.cores=1L)