Name
Title | ||
|---|---|---|
A new method for DNA sequencing error verification and correction via an on-disk index tree |
Abstract | ||
|---|---|---|
Existing sequencing error correction techniques demand large expensive memory space. In this work, we introduce a new disk-based sequencing error correction method to solve the problem. The key idea is to utilize a special on-disk index structure, called the BoND-tree, to store and access a large set of k-mers and their associated metadata on disk. With the BoND-tree, a set of special box queries to retrieve the relevant k-mers and their counts are efficiently processed. A comprehensive voting mechanism is adopted to determine and correct an erroneous base in a genome sequence. Experiments demonstrate that the proposed method is quite promising in verifying and correcting sequencing errors in terms of accuracy and scalability.
|
Year | Venue | Field |
|---|---|---|
2015 | BCB | Metadata,Data mining,Voting,Computer science,Error detection and correction,Whole genome sequencing,DNA sequencing,Bioinformatics,Scalability |
DocType | ISBN | Citations |
Conference | 978-1-4503-3853-0 | 0 |
PageRank | References | Authors |
0.34 | 3 | 6 |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Yarong Gu | 1 | 0 | 0.68 |
| Xianying Liu | 2 | 0 | 0.34 |
| Qiang Zhu | 3 | 398 | 60.85 |
| Youchao Dong | 4 | 0 | 0.34 |
| C. Titus Brown | 5 | 137 | 15.25 |
| Sakti Pramanik | 6 | 770 | 204.19 |