MetaPlatanus: a metagenome assembler that combines long-range sequence links and species-specific features.

ABSTRACT: De novo metagenome assembly is effective in assembling multiple draft genomes, including those of uncultured organisms. However, heterogeneity in the metagenome hinders assembly and introduces interspecies misassembly deleterious for downstream analysis. For this purpose, we developed a hybrid metagenome assembler, MetaPlatanus. First, as a characteristic function, it assembles the basic contigs from accurate short reads and then iteratively utilizes long-range sequence links, species-specific sequence compositions, and coverage depth. The binning information was also used to improve contiguity. Benchmarking using mock datasets consisting of known bacteria with long reads or mate pairs revealed the high contiguity MetaPlatanus with a few interspecies misassemblies. For published human gut

SUBMITTER: Kajitani R 

PROVIDER: S-EPMC8682757 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature