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(→Completing microbial genome assemblies: strategy and performance comparisons)
(→Completing microbial genome assemblies: strategy and performance comparisons)
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  In this article, we provide a comprehensive review of the above-motioned methods and collect datasets for the comparative assessment of the non-hybrid approaches—hierarchical genome-assembly process (HGAP) and self-correction approach (SCA). In addition to offering explicit and useful recommendations to practitioners, the review aims to aid in the design of a paradigm positioned to complete microbial genome assembly. Following a special methodology proposed by ALLPATHS-LG, the algorithm is supplied with three pre-prepared libraries—fragment, jump and long reads. ALLPATHS-LG is subsequently able to complete microbial genomes as the sequencing coverage is controlled at 100X. Although the hybrid approach could improve continuity over the assembly produced by second-generation sequencing reads, we remained unsuccessful in the completion of a complete genome using this approach. Both non-hybrid approaches—HGAP and SCA—are able to produce complete genomes provided that the third generation sequencing reads are adequately long and complete.    In this article, we provide a comprehensive review of the above-motioned methods and collect datasets for the comparative assessment of the non-hybrid approaches—hierarchical genome-assembly process (HGAP) and self-correction approach (SCA). In addition to offering explicit and useful recommendations to practitioners, the review aims to aid in the design of a paradigm positioned to complete microbial genome assembly. Following a special methodology proposed by ALLPATHS-LG, the algorithm is supplied with three pre-prepared libraries—fragment, jump and long reads. ALLPATHS-LG is subsequently able to complete microbial genomes as the sequencing coverage is controlled at 100X. Although the hybrid approach could improve continuity over the assembly produced by second-generation sequencing reads, we remained unsuccessful in the completion of a complete genome using this approach. Both non-hybrid approaches—HGAP and SCA—are able to produce complete genomes provided that the third generation sequencing reads are adequately long and complete. 
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  = Datasets employed in this study =    = Datasets employed in this study =