normalization: normalization: Normalization for single-cell RNA-seq data

In miaozhun/ImputeSingle: scRecover for imputation of single-cell RNA-seq data

normalization: Normalization for single-cell RNA-seq data

Description

This function is used to normalize single-cell RNA-seq (scRNA-seq) data. It takes a non-negative matrix of scRNA-seq raw read counts or a SingleCellExperiment object as input.

Usage

normalization(counts)

Arguments

counts

A non-negative integer matrix of scRNA-seq raw read counts or a SingleCellExperiment object which contains the read counts matrix. The rows of the matrix are genes and columns are samples/cells.

Value

A normalized scRNA-seq read counts matrix.

Author(s)

Zhun Miao.

See Also

scRecover, for imputation of single-cell RNA-seq data.

estDropoutNum, for estimating dropout gene number in a cell.

countsSampling, for downsampling the read counts in a cell.

scRecoverTest, a test dataset for scRecover.

Examples

# Load test data
data(scRecoverTest)

# Normalization of counts
counts.norm <- normalization(counts = counts)

miaozhun/ImputeSingle documentation built on Jan. 12, 2023, 8:06 p.m.