Universal preprocessing of single-cell genomics data

Abstract

AbstractWe describe a workflow for preprocessing a wide variety of single-cell genomics data types. The approach is based on parsing of machine-readableseqspecassay specifications to customize inputs forkb-python, which useskallistoandbustoolsto catalog reads, error correct barcodes, and count reads. The universal preprocessing method is implemented in the Python packagecellatlasthat is available for download at:https://github.com/cellatlas/cellatlas/.