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URL: https://broadinstitute.github.io/warp/docs/Pipelines/Single_Cell_ATAC_Seq_Pipeline/README
Proper Citation: scATAC Pipeline (RRID:SCR_018919)
Description: Pipeline developed in collaboration with Bing Ren lab and supports processing of BICCN single-cell/nucleus ATAC-seq datasets. Pipeline uses python module SnapTools to align and process paired reads in form of FASTQ files. Produces hdf5-structured Snap file that includes cell-by-bin count matrix. Final outputs also include GA4GH compliant aligned BAM and QC metrics.
Synonyms: single cell ATAC, scATAC
Resource Type: data processing software, software resource, software application
Keywords: Data, data processing, single nuclei, ATAC-seq datasets, paired reads processing, FASTQ file
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Source: SciCrunch Registry
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