rawfile_ToBigWig : reads in BAM file and write out BigWig coverage file, normalized and smoothed

rawfile_ToBigWig : reads in BAM file and write out BigWig coverage file, normalized and smoothed

rawfile_ToBigWig(
  filename,
  BigWig_filename,
  format = "BAM",
  bin_width = 150,
  n_smoothBin = 5,
  ref = "hg38",
  read_size = 101
)

Arguments

filename	Path to the BAM file (with index) or BED file
BigWig_filename	Path to write the output BigWig file
format	File format, either "BAM" or "BED"
bin_width	Bin size for coverage
n_smoothBin	Number of bins for smoothing values
ref	Reference genome.
read_size	Length of the reads.

Value

Writes a BigWig file as output