AI Article Synopsis
- SKESA is a DeBruijn graph-based assembler specifically designed for creating assemblies from microbial genome reads sequenced with Illumina technology.
- It outperforms other assemblers like SPAdes and MegaHit by delivering high-quality, contiguous sequences while being fast and consistent across multiple assembly runs.
- SKESA has been utilized for over 272,000 read sets in the NCBI Sequence Read Archive and is available for real-time pathogen detection; its source code can be accessed for free on GitHub.
Article Abstract
SKESA is a DeBruijn graph-based de-novo assembler designed for assembling reads of microbial genomes sequenced using Illumina. Comparison with SPAdes and MegaHit shows that SKESA produces assemblies that have high sequence quality and contiguity, handles low-level contamination in reads, is fast, and produces an identical assembly for the same input when assembled multiple times with the same or different compute resources. SKESA has been used for assembling over 272,000 read sets in the Sequence Read Archive at NCBI and for real-time pathogen detection. Source code for SKESA is freely available at https://github.com/ncbi/SKESA/releases .
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Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6172800 | PMC |
| http://dx.doi.org/10.1186/s13059-018-1540-z | DOI Listing |
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