select_DHS_cluster: Select variable ENCODE cluster features from scATAC-seq data

In WeiqiangZhou/SINTER: Single-cell genomic data integration

Description

This function is used for selecting variable ENCODE cluster features from scATAC-seq data.

Usage

select_DHS_cluster(DHS_data, lib_th = 1000, var_th = 0.2,
  dataplot = FALSE)

Arguments

DHS_data	Summarized ENCODE cluster features from scATAC-seq data.
lib_th	Threshold for filtering out cells with low total number of reads.
var_th	Threshold for filtering out ENCODE cluster features with low variability in the given percentage of features.
dataplot	Plot the mean and variance of all ENCODE cluster features and the selected features are highlighted.

Value

data_select	Selected ENCODE cluster features.
select_idx	Index for the selected ENCODE cluster features.

Examples

## Not run: 
scATAC_data_select <- select_DHS_cluster(DHS_data,lib_th=1e3,var_th=0.2,dataplot=FALSE)

## End(Not run)

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