FindVariableGenes: Find Variable Genes

In edroaldo/fusca: Framework for Unified Single-Cell Analysis

Find Variable Genes

Description

Preprocessing step to find variable genes to use in the downstream analysis. It reduces the number of genes to be considered and speeds up the workflow. It also plots the genes by their p-value.

Usage

FindVariableGenes(
  object,
  assay.type = "RNA",
  method = "vst",
  pvalue = 1e-06,
  loess.span = 0.3
)

Arguments

object	CellRouter object.
assay.type	character; the type of data to use.]
method	character; the method to perform the identification of variable genes: coefficient_variation or vst (more efficient).
pvalue	numeric; the p-value threshold for the genes to be considered. Argument for the coefficient_variation method.
loess.span	numeric; argument for the vst method.

Value

dataframe; the information about the genes.

edroaldo/fusca documentation built on March 1, 2023, 1:43 p.m.