localizeSCE: Wrapper function for the YeastSCElocatoR package

In daewoooo/HapSCElocatoR: Find SCEs in haploid Strand-seq data

Description

Wrapper function for the YeastSCElocatoR package

Usage

localizeSCE(inputDirectory, outputDirectory = "./SCE_analysis",
  chromosomes = NULL, min.mapq = 10, minSeg = 0, minSize = 0,
  smooth = 1, method = "CBS", hotspots = FALSE, read.len = 50)

Arguments

inputDirectory	Folder with BAM files to analyze
outputDirectory	Folder to output the results. If it does not exist it will be created.
min.mapq	Minimum mapping quality when importing from BAM files.
minSeg	A minimal length of continuous segments of a certain value
smooth	A number of subsequent integers considered as errors

Author(s)

David Porubsky

daewoooo/HapSCElocatoR documentation built on May 5, 2019, 11:08 p.m.