extractReads

A vector contains the selected barcodes.

barcodes

A vector contains the snap file that barcodes belong to.

files

A logic variable indicates weather to run this in parallel with multiple processors.

do.par

num.cores

This function takes a barcode list and snap file as input and quickly extract reads belonging to the given barcodes.

A fast and accurate analysis toolkit for single cell ATAC-seq. Single cell ATAC-seq can resolve the heterogeneity of a complex tissue and reveal cell-type specific regulatory landscapes. However, the exceeding data sparsity has posed unique challenges for the data analysis. SnapATAC is an end-to-end bioinformatics pipeline for analyzing large-scale single cell ATAC-seq data which includes quality control, normalization, clustering analysis, differential analysis, motif inference and exploration of single cell ATAC-seq sequencing data. See Preissl S, Fang R, et al (2018) <doi:10.1038/s41593-018-0079-3> for more details.

extractReads: Extract Reads By Barcodes

Description

Usage

Arguments

Value