TDFPS-Designer: an efficient toolkit for barcode design and selection in nanopore sequencing
Oxford Nanopore Technologies (ONT) offers ultrahigh-throughput multi-sample sequencing but only provides barcode kits that enable up to 96-sample multiplexing. We present TDFPS-Designer, a new toolkit for nanopore sequencing barcode design, which creates significantly more barcodes: 137 with a length of 20 base pairs, 410 at 24 bp, and 1779 at 30 bp, far surpassing ONT's offerings. It includes GPU-based acceleration for ultra-fast demultiplexing and designs robust barcodes suitable for high-error ONT data. TDFPS-Designer outperforms current methods, improving the demultiplexing recall rate by 20% relative to Guppy, without a reduction in precision.
Authors
- Junhai Qi (ORCID: https://orcid.org/0000-0003-4023-0719)
- Zhengyi Li (ORCID: https://orcid.org/0000-0003-3238-6465)
- Xin D. Gao (ORCID: https://orcid.org/0000-0002-7108-3574)
- Renmin Han (ORCID: https://orcid.org/0000-0003-4761-6526)
- Guojun Li (ORCID: https://orcid.org/0000-0003-1581-5897)
- Yaozhong Zhang (ORCID: https://orcid.org/0000-0001-5598-2521)
Institutions
- Qingdao University (CN)
- Shandong University (CN)
- King Abdullah University of Science and Technology (SA)
- The University of Tokyo (JP)
Publication Details
- Journal
- Genome biology
- Published
- 2024-11-04
- DOI
- https://doi.org/10.1186/s13059-024-03423-3
- Primary Topic
- Advanced biosensing and bioanalysis techniques
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- National Natural Science Foundation of China
- King Abdullah University of Science and Technology
- Natural Science Foundation of Shandong Province
- National Key Research and Development Program of China