ExtractNormCounts: Extracts scaled counts from Seurat or Pagoda2 objects

Description Usage Arguments Value

View source: R/data_processing.R

Description

Extracts scaled counts from Seurat or Pagoda2 objects

Usage

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ExtractNormCounts(obj, obj.type = "seurat", rescale = T,
  rescale.method = "log", batch = NULL)

Arguments

obj

Seurat or Pagoda2 object

obj.type

Must be either "seurat" or "pagoda2"

rescale

Rescale data with plain pagoda2 model

rescale.method

Rescale method, either "log", or "ft"

batch

If rescaling and multiple batches, specify batch

Value

Normalized gene expression matrix


yanwu2014/swne documentation built on Dec. 18, 2018, 2:39 a.m.