Journal
BIOINFORMATICS
Volume 31, Issue 10, Pages 1674-1676Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btv033
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Funding
- Hong Kong GRF (General Research Fund) [HKU-713512E]
- ITF (Innovation and Technology Fund) [GHP/011/12]
- Grants-in-Aid for Scientific Research [23240002] Funding Source: KAKEN
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MEGAHIT is a NGS de novo assembler for assembling large and complex metagenomics data in a time-and cost-efficient manner. It finished assembling a soil metagenomics dataset with 252Gbps in 44.1 and 99.6h on a single computing node with and without a graphics processing unit, respectively. MEGAHIT assembles the data as a whole, i.e. no pre-processing like partitioning and normalization was needed. When compared with previous methods on assembling the soil data, MEGAHIT generated a three-time larger assembly, with longer contig N50 and average contig length; furthermore, 55.8% of the reads were aligned to the assembly, giving a fourfold improvement.
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