mxkmink: Find normalizing coefficients based on Nucleosome Free...

In suvarzz/MNuc: MNuc

Description

Find normalizing coefficients based on Nucleosome Free Regions (NFR). For data frames where rownames contain coordinates, and data frame contains data only.

Usage

  mxkmink(indir = c("/home/suvar/Projects/007_ChIPseq_HU-SR/output/tss_data/Et/means/all/Meandata-All_1.mean.dat.gz",
  "/home/suvar/Projects/007_ChIPseq_HU-SR/output/ars_dat/all/Et/HU_SR_Et_ars_meandata_All_1.mean.dat.gz"),
  snames = c("2h", "1.5h", "0'", "10'", "20'", "30'", "40'", "50'",
  "60'", "70'", "80'", "90'"), dirnames = c("et_tss", "et_ars"),
  weights = c(4547, 352))

Arguments

snames	Sample names
dirnames	Vector containing names of features (one feature in the input directory)
weights	Vector containings number of every feature in a genome. Need for calculation of weighted means.
dir	Directory containing vector of meandata for all features containing Nucleosome Free Regions. e.g. TSS, ARS

Value

matrix of coefficients for each sample in each given feature

suvarzz/MNuc documentation built on Aug. 11, 2019, 6:45 a.m.