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bioRxiv · 10.1101/2022.10.09.511501

Quantifying orthogonal barcodes for sequence census assays

Booeshaghi, A. S.·Min, K. H.·Gehring, J.·Pachter, L.
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Abstract

Barcode-based sequence census assays utilize custom or random oligonucloetide sequences to label various biological features, such as cell-surface proteins or CRISPR perturbations. These assays all rely on barcode quantification, a task that is complicated by barcode design and technical noise. We introduce a modular approach to quantifying barcodes that achieves speed and memory improvements over existing tools. We also introduce a set of quality control metrics, and accompanying tool, for validating barcode designs.

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Booeshaghi, A. S., Min, K. H., Gehring, J., Pachter, L.. 2022-10-10. Quantifying orthogonal barcodes for sequence census assays. https://doi.org/10.1101/2022.10.09.511501

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