PT  - JOURNAL ARTICLE
AU  - Booeshaghi, A. Sina
AU  - Min, Kyung Hoi (Joseph)
AU  - Gehring, Jase
AU  - Pachter, Lior
TI  - Quantifying orthogonal barcodes for sequence census assays
AID  - 10.1101/2022.10.09.511501
DP  - 2022 Jan 01
TA  - bioRxiv
PG  - 2022.10.09.511501
4099  - http://biorxiv.org/content/early/2022/10/10/2022.10.09.511501.short
4100  - http://biorxiv.org/content/early/2022/10/10/2022.10.09.511501.full
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.