Table 3.
Scaffolding accuracy of AGOUTI and RNAPATH with K = 2
| Assembly | Program | Inter-chromosomal errors | Intra-chromosomal errors | No. of contigs placed repeatedly |
|---|---|---|---|---|
| CE1 | AGOUTI | 2 | 2 | 0 |
| RNAPATH | 6 | 7 | 12 | |
| RNAPATHD | 8 | 10 | 0 | |
| CE2 | AGOUTI | 2 | 0 | 0 |
| RNAPATH | 8 | 14 | 1 | |
| RNAPATHD | 3 | 12 | 0 | |
| CE3 | AGOUTI | 0 | 1 | 0 |
| RNAPATH | 3 | 10 | 11 | |
| RNAPATHD | 2 | 11 | 0 | |
| CE4 | AGOUTI | 1 | 0 | 0 |
| RNAPATH | 7 | 5 | 10 | |
| RNAPATHD | 2 | 7 | 0 | |
| CE5 | AGOUTI | 0 | 0 | 0 |
| RNAPATH | 1 | 2 | 0 | |
| RNAPATHD | 1 | 4 | 0 | |
| CE6 | AGOUTI | 1 | 0 | 0 |
| RNAPATH | 6 | 4 | 0 | |
| RNAPATHD | 1 | 3 | 0 | |
| AGOUTI | 17 | 3 | 0 | |
| N2/CB | RNAPATH | 37 | 14 | 6 |
| RNAPATHD | 20 | 12 | 0 | |
| AGOUTI | 213 | 12 | 0 | |
| Lyco | RNAPATH | 535 | 150 | 17 |
| RNAPATHD | 366 | 292 | 0 |
DRNAPATH run with denoised joining-pairs. Best-performing programs are highlighted in bold