Seurat (version 2.1.0)

NormalizeData: Normalize Assay Data

Description

Normalize data for a given assay

Usage

NormalizeData(object, assay.type = "RNA",
  normalization.method = "LogNormalize", scale.factor = 10000,
  display.progress = TRUE)

Arguments

object

Seurat object

assay.type

Type of assay to normalize for (default is RNA), but can be changed for multimodal analyses.

normalization.method

Method for normalization. Default is log-normalization (LogNormalize). More methods to be added very shortly.

scale.factor

Sets the scale factor for cell-level normalization

display.progress

display progress bar for scaling procedure.

Value

Returns object after normalization. Normalized data is stored in data or scale.data slot, depending on the method

Examples

# NOT RUN {
pbmc_small
pmbc_small <- NormalizeData(object = pbmc_small)

# }