ENCLfunc: Summarize single-cell ATAC-seq data according to ENCODE...

Description Usage Arguments Value Examples

View source: R/SINTER_functions.R

Description

This function is used for summarizing scATAC-seq data according to ENCODE clusters.

Usage

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ENCLfunc(path, gr_ENCL, type = "paired")

Arguments

path

Directory to bam files of scATAC-seq data

gr_ENCL

GRanges object for ENCODE clusters

type

Sequencing read type. "paired" or "single" end read.

Value

data

Log2-transformed summarized data matrix.

lib

Total read counts (i.e., library size) for each single cell.

Examples

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## Not run: 
scATAC_data <- ENCLfunc("/bam_file_path",gr_ENCL,type="paired")

## End(Not run)

WeiqiangZhou/SINTER documentation built on Sept. 11, 2019, 8:03 a.m.