CleanBar

CleanBar demultiplexes reads tagged with sequentially ligated barcodes in split-and-pool barcoding single-cell omics, accommodating variations in barcode positions and linker lengths.

Key Features:

• Flexible barcode matching: Accommodates variations in barcode positions and linker lengths.
• Misclassification prevention: Prevents misclassification of natural barcode-like sequences.
• Error handling: Handles diverse ligation errors.
• Quality statistics: Provides statistics useful for optimizing laboratory procedures.

Scientific Applications:

• Microbial single-cell genomics: Enables high-throughput analysis of bacterial interactions with plasmids and bacteriophages using the Atrandi platform coupled with PacBio sequencing.
• Phage-bacteria interaction studies: Reveals infection heterogeneity and enables phage copy number estimation per cell in bacterial strain-phage systems such as Klebsiella strains with their corresponding phages.
• Microbial ecology and evolution: Advances understanding of microbial ecology and evolution through single-cell resolution metagenomics.

Methodology:

CleanBar performs demultiplexing of reads tagged with sequentially ligated barcodes generated through sequential ligations in 96-well plates.