Extracting, filtering and simulating cellular barcodes using CellBarcode tools.

ABSTRACT: Identifying true DNA cellular barcodes among polymerase chain reaction and sequencing errors is challenging. Current tools are restricted in the diversity of barcode types supported or the analysis strategies implemented. As such, there is a need for more versatile and efficient tools for barcode extraction, as well as for tools to investigate which factors impact barcode detection and which filtering strategies to best apply. Here we introduce the package CellBarcode and its barcode simulation kit, CellBarcodeSim, that allows efficient and versatile barcode extraction and filtering for a range of barcode types from bulk or single-cell sequencing data using a variety of filtering strategies. Using the barcode simulation kit and biological data, we explore the technical and biological facto

SUBMITTER: Sun W 

PROVIDER: S-EPMC10899113 | biostudies-literature | 2024 Feb

REPOSITORIES: biostudies-literature