macc: A function to compute MNase accessibility (MACC) scores.

In jakubmie/MACC: MNase accesibility (MACC) scores.

Description

A function to compute MNase accessibility (MACC) scores.

Usage

macc(tags.in.bins = NULL, tit.points = NULL, gc.cont = NULL,
  chrn = NULL, chr.stat = NULL, mc.cores = 2, bin = 300, CpG = NULL)

Arguments

tags.in.bins	an list returned by count.tags.in.bins function and contatining localization of bins and number of tags in each of the selected bins.
tit.points	a vector of MNase concentrations used in the experiment. The concentrations should be provided in ascending order.
gc.cont	a list of vectors containing information about GC content. Each vector corresponds to different chromosome.
chrn	a vector of chromosome names or NULL for all chromosomes.
chr.stat	a data.frame with sizes of analyzed chromosmes.
mc.cores	a number of cores for parallel computing.
bin	a size of a bin.
CpG	a GenomeRanges object with localization of CpG island.
scale.genome.to.100Mb	logical. Should the values be normalized to genome size?
normalize.perBinSize	logical. Should the values be normalized to been size?#' @keywords MACC

Examples

macc()

jakubmie/MACC documentation built on May 18, 2019, 11:17 a.m.