RT Journal Article
SR Electronic
T1 Quantifying orthogonal barcodes for sequence census assays
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2022.10.09.511501
DO 10.1101/2022.10.09.511501
A1 Booeshaghi, A. Sina
A1 Min, Kyung Hoi (Joseph)
A1 Gehring, Jase
A1 Pachter, Lior
YR 2022
UL http://biorxiv.org/content/early/2022/10/10/2022.10.09.511501.abstract
AB 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.Competing Interest StatementThe authors have declared no competing interest.