Dataprep: Normalize count matrix

In cuhklinlab/RA3: The R-based implementation of "A reference-guided approach for epigenetic characterization of single cells".

Description

This funciton is optional for normalization of runRA3's input count matrix. It implements TF-IDF for matrix normailization.

Usage

Dataprep(sc_data, ref_data)

Arguments

sc_data	Input single cell ATAC sequence count matrix, rows refer to features/regions, columns refer to cells.
ref_data	Input reference data, rows refer to observations, columns refer to features/regions.

Value

A list containing following components:

sc_data	Normalized scATAC-seq count matrix with selected features.
ref_data	Normalized reference count matrix with selected features.

cuhklinlab/RA3 documentation built on March 18, 2021, 4:38 p.m.