powerPeaksNR: How many MACS-peaks are in region for given TF

In LosevAMU/remapR: Bioinformatic tools to transform ReMap-data in R

How many MACS-peaks are in region for given TF

Description

Function counts quantity of peaks of given TF in region.

Usage

powerPeaksNR(arrayData = "", nameChromosome = "chr21", begin = "", end = "",
firstCut = "in", secondCut = "in", TF="AR")

Arguments

arrayData	Data or path to data, by default "~/tmp/RData/Output".
nameChromosome	Name of chromosome.
begin	Position of starting of searching on chromosome.
end	Position of ending of searching on chromosome.
firstCut	Can be "in" or "out". Condition of searching. "in" means that begin of MACS-peak can be before param "begin". "out" means that begin of MACS-peak can be only after param "begin".
secondCut	Can be "in" or "out". Condition of searching. "in" means that end of MACS-peak can be after param "end". "out" means that end of MACS-peak can be only before param "end".
TF	Name of TF.

Value

Data Frame (class = "data.frame") of quantity of peaks in this address.

Author(s)

Alexey Solovyev

Examples

myFrame <- powerPeaksNR(arrayData = "", nameChromosome = "chr21", begin = "", end = "",
firstCut = "in", secondCut = "in", TF="AR")

LosevAMU/remapR documentation built on Sept. 25, 2024, 12:32 p.m.