read_vplot-GRanges-character-BSgenome-method: Read the V-plot

In gongx030/seatac: ATAC-seq V-plot analysis

Read the V-plot

Description

Read the V-plot from BAM files within a set of genomic regions

Usage

## S4 method for signature 'GRanges,character,BSgenome'
read_vplot(
  x,
  filenames,
  genome,
  bin_size = 5L,
  fragment_size_range = c(0, 320L),
  fragment_size_interval = 10L,
  ignore_strand = TRUE
)

Arguments

x	a GRange object that define a set of genomic regions.
filenames	BAM file names
genome	a BSgenome object
bin_size	The bin size (default: 5L)
fragment_size_range	The range of the PE reads fragment sizes that are used for constructing Vplot (default: c(0, 320L))
fragment_size_interval	Fragment size interval (default: 10L)
ignore_strand	whether ignore the strand of the V-plot (default: TRUE)

Author(s)

Wuming Gong ([e-mail])

gongx030/seatac documentation built on April 15, 2023, 5:53 a.m.