run.cca: Run CCA on the main data

In iCellR: Analyzing High-Throughput Single Cell Sequencing Data

Description

This function takes an object of class iCellR and runs CCA using Seurat.

Usage

run.cca(
  x = NULL,
  top.vari.genes = 1000,
  cc.number = 30,
  dims.align = 1:20,
  normalize.data = TRUE,
  scale.data = TRUE,
  normalization.method = "LogNormalize",
  scale.factor = 10000,
  display.progress = TRUE
)

Arguments

x	An object of class iCellR.
top.vari.genes	Chose top genes to use for CCA, default = 1000.
cc.number	Choose a number, default = 30.
dims.align	Choose the CCA dimentions to align, default = 1:20.
normalize.data	TRUE or FALSE, default = TRUE.
scale.data	TRUE or FALSE, default = TRUE.
normalization.method	Choose a method, default = "LogNormalize".
scale.factor	Scaling factor, default = 10000.
display.progress	Show progress, default = TRUE.

Value

An object of class iCellR.

iCellR documentation built on Oct. 9, 2021, 5:07 p.m.