Name
Abstract | ||
|---|---|---|
Motivation: A genome read dataset can be quickly and efficiently remapped from one reference to another similar reference (e.g., between two reference versions or two similar species) using a variety of tools, e.g., the commonly used CrossMap tool. With the explosion of available genomic datasets and references, high-performance remapping tools will be even more important for keeping up with the computational demands of genome assembly and analysis. Results: We provide FastRemap, a fast and efficient tool for remapping reads between genome assemblies. FastRemap provides up to a 7.82x speedup (6.47x, on average) and uses as low as 61.7% (80.7%, on average) of the peak memory consumption compared to the state-of-the-art remapping tool, CrossMap. |
Year | DOI | Venue |
|---|---|---|
2022 | 10.1093/bioinformatics/btac554 | BIOINFORMATICS |
DocType | Volume | Issue |
Journal | 38 | 19 |
ISSN | Citations | PageRank |
1367-4803 | 1 | 0.34 |
References | Authors | |
0 | 6 | |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Jeremie S. Kim | 1 | 1 | 0.34 |
| Can Firtina | 2 | 9 | 1.74 |
| Meryem Banu Cavlak | 3 | 1 | 0.34 |
| Damla Senol Cali | 4 | 34 | 3.32 |
| Can Alkan | 5 | 312 | 26.92 |
| Onur Mutlu | 6 | 9446 | 357.40 |