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Table 3 Evaluation summary of assemblies using SOAPdenovo scaffolds and ONT contigs as input for HG001

From: SLR-superscaffolder: a de novo scaffolding tool for synthetic long reads using a top-to-bottom scheme

  SLR-superscaffolder fragScaff Architect ARKS
Human (SOAPdenovo scaffolds)
 Number of scaffolds (> 1000 bp) 48,278 54,193 79,435 80,400
 Largest scaffold (bp) 35,605,665 59,127,605 796,758 10,897,000
 Total assembled length (bp) 3,115,923,941 3,094,665,921 2,659,717,897 2,713,878,926
 NG50 (bp) 9,113,260 2,346,521 54,245 468,461
 NGA50 (bp) 1,510,911 101,813 44,836 59,899
 Relocation 2373 32,588 1104 20,906
 Inversion 105 1866 39 110
 Translocation 3694 2926 875 4060
 Number of misassemblies 6172 37,380 218 25,076
Human (ONT contigs)
 Number of scaffolds (> 1000 bp) 807 1051 1474 876
 Largest scaffold (bp) 90,148,984 109,245,684 45,826,758 170,045,596
 Total assembled length (bp) 2,829,830,390 2,828,106,943 2,823,722,824 2,823,836,148
 NG50 (bp) 21,779,983 26,579,775 8,806,572 39,604,458
 NGA50 (bp) 1,578,910 1,592,388 1,481,592 1,574,345
 Relocation 4378 4182 3962 4266
 Inversion 64 63 60 61
 Translocation 1575 1453 1383 1607
 Number of misassemblies 6017 5698 5405 5934
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