unpairedCNV: Unpaired CNV calling

In hutaobo/AluScanCNV2: An R package for copy number variation-based cancer risk prediction

Description

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4273479/pdf/13336_2014_Article_15.pdf

Usage

unpairedCNV(sample.5k.doc, window.size = c("500k", "400k", "300k",
  "250k", "200k", "100k", "50k"), seq.method = c("AluScan", "WGS"),
  gender = c("NA", "M", "F"), custom.ref = NULL,
  custom.ref.info = NULL, qOutlier = 0.95, output.path = "./",
  replace = TRUE, ...)

Arguments

sample.5k.doc

An object or the path to the doc file.

Examples

sample_doc_path <- system.file("extdata/Breast1_b.5k.doc", package = "AluScanCNV")
unpairedCNV(sample.5k.doc = sample_doc_path, window.size = "500k", seq.method = "AluScan", output.path = "./")

hutaobo/AluScanCNV2 documentation built on May 27, 2019, 3:31 p.m.