plotSCellCNVTree: plotSCellCNVTree()

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

Description

Pyhlogenetic tree-based clustering and visualization of the cells based on the CNV events from single cell RNA-seq Data.

Usage

plotSCellCNVTree(finalChrMat, sampleName,
  path = "C:\\Users\\aharmanci\\Downloads\\phylip-3.695\\phylip-3.695\\exe",
  fileName)

Arguments

finalChrMat	large scale events identified from CaSpER represented as matrix. Rows indicates samples (cells) whereas columns indicates chromosome arms
sampleName	sample name
path	path to the executable containing fitch. If path = NULL, the R will search several commonly used directories for the correct executable file. More information about installing PHYLIP can be found on the PHYLIP webpage: http://evolution.genetics.washington.edu/phylip.html.

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