extractEvents: extractEvents()

In akdess/CaSpER: Identify large-scale CNV events from single cell or bulk RNA-Seq data

Description

formats large scale events as a matrix. Rows represent samples (cells) whereas columns represent chromosome arms (1: amplification, 0: neutral, -1: deletion) helper function for generateLargeScaleEvents()

Usage

extractEvents(segments, cytoband, type)

Arguments

cytoband	cytoband information downloaded from UCSC hg19: http://hgdownload.cse.ucsc.edu/goldenpath/hg19/database/cytoBand.txt.gz hg38:http://hgdownload.cse.ucsc.edu/goldenpath/hg38/database/cytoBand.txt.gz
type	event type amp (amplification) or del (deletion)/
object	casper object

Value

combined large scale events in data.frame

akdess/CaSpER documentation built on April 8, 2021, 8:59 a.m.