Research Article
HaVec: An Efficient de Bruijn Graph Construction Algorithm for Genome Assembly
Table 8
t-test results excluding 50 m.fa.
| File name | Minia runtime | HaVec 5-byte mf = 1.2 | HaVec 5-byte mf = 1.5 | HaVec 6-byte mf = 1.2 | HaVec 6-byte mf = 1.5 |
| Ecoli_MG1655_s_6_1_bfast.fasta | 100.00 | 86.625 | 0 | 85.875 | 70.25 | Ecoli_MG1655_s_6_1_bfast.fasta | 100.50 | 86.125 | 8.75 | 86.875 | 69.375 | Ecoli_MG1655_s_6_2_bfast.fasta | 1801.350 | 597.5 | 86.5 | 601.25 | 488.50 | Ecoli_MG1655_s_6_2_bfast.fasta | 1756.00 | 589.875 | 476.5 | 592.75 | 480.75 | Human1_95G_CASAVA1.8a2_NCBI37_18Jan_chr19.sorted.fasta | 2236.00 | 724.25 | 593.25 | 722 | 601.50 | Human1_95G_CASAVA1.8a2_NCBI37_18Jan_chr19.sorted.fasta | 2071.50 | 726.25 | 592.75 | 738.50 | 611.625 | Human1_95G_CASAVA1.8a2_NCBI37_18Jan11_chr21.sorted.fasta | 1087.50 | 449.5 | 370.625 | 444.125 | 371.50 | Human1_95G_CASAVA1.8a2_NCBI37_18Jan11_chr21.sorted.fasta | 1124.50 | 447.875 | 374.50 | 450.625 | 374.75 | NA19240_GAIIx_100_chr21.fasta | 832.00 | 621 | 513.50 | 623.625 | 508.625 | NA19240_GAIIx_100_chr21.fasta | 870.00 | 619.25 | 504.625 | 622.375 | 525.75 | dataset_1_7GB.fa | 1078.50 | 446.5 | 368.125 | 450.25 | 395.25 | dataset_1_7GB.fa | 1102.00 | 451.25 | 367 | 454.25 | 373.75 | dataset_1_9GB.fa | 841.50 | 619.875 | 507.125 | 628.375 | 516.0 | dataset_1_9GB.fa | 862.00 | 626 | 507.625 | 624.125 | 511.375 | -value | NA | 5.6466 | 5.1002 | 4.6367 | 5.0702 |
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