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(Completing microbial genome assemblies: strategy and performance comparisons)
(Datasets employed in this study)
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  = Datasets employed in this study =    = Datasets employed in this study = 
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  We have used <span style="color:#FF0000;background-color:#ffffcc;">ALLPATHS-LG</span> to assemble three bacterial genomes: [[E. coli]], [[R. sphaeroides]], and [[S. pneumoniae]]. The sequencing reads for these three genome assemblies are summarized in the following table (<span style="color:#FF0000;background-color:#ffffcc;">D1-D3</span>).    We have used <span style="color:#FF0000;background-color:#ffffcc;">ALLPATHS-LG</span> to assemble three bacterial genomes: [[E. coli]], [[R. sphaeroides]], and [[S. pneumoniae]]. The sequencing reads for these three genome assemblies are summarized in the following table (<span style="color:#FF0000;background-color:#ffffcc;">D1-D3</span>). 
       
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  We have conducted the both non-hybrid approaches: <span style="background-color:#D4F2CE;">hierarchical genome-assembly process ([[HGAP]])</span> and <span style="background-color:#D4F2CE;">self-correction approach ([[SCA]])</span> to ''de novo'' assemble the PacBio long reads. The datasets used in the non-hybrid approach are composed of various SMRT cells, ranging from 4 to 17 XL-C2 SMRT cells (<span style="background-color:#D4F2CE;">D5-D8</span>), and a single SMRT cell gathered with PacBio RS II system and P4-C2 chemistry (<span style="background-color:#D4F2CE;">D9</span>).    We have conducted the both non-hybrid approaches: <span style="background-color:#D4F2CE;">hierarchical genome-assembly process ([[HGAP]])</span> and <span style="background-color:#D4F2CE;">self-correction approach ([[SCA]])</span> to ''de novo'' assemble the PacBio long reads. The datasets used in the non-hybrid approach are composed of various SMRT cells, ranging from 4 to 17 XL-C2 SMRT cells (<span style="background-color:#D4F2CE;">D5-D8</span>), and a single SMRT cell gathered with PacBio RS II system and P4-C2 chemistry (<span style="background-color:#D4F2CE;">D9</span>). 
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