Table 5 Comparisons of large Drosophila melanogaster transcriptome assemblies of SOAPdenovo-Trans, Trans-ABySS and kCombine with k=25 over different values of k-mer coverage cutoff c
c | Transcripts | n50 | Blast | Full | Spec | Unique | Transloc | Memory |
|---|---|---|---|---|---|---|---|---|
SOAPdenovo-Trans | Â | Â | Â | Â | Â | Â | Â | Â |
20 | 92193 | 1272 | 27258 | 6926 | 72.1% | 81426 (88.3%) | 186 (0.2%) | 16 GB |
50 | 65273 | 1422 | 26671 | 6832 | 81.8% | 58101 (89.0%) | 90 (0.1%) | 16 GB |
kCombine(SOAPdenovo-Trans) | Â | Â | Â | Â | Â | Â | Â | Â |
3 | 84307 | 1944 | 27391 | 12269 | 79.6% | 77649 (92.1%) | 1222 (1.4%) | 4 GB |
5 | 66098 | 2037 | 27153 | 11710 | 84.0% | 61227 (92.6%) | 976 (1.5%) | 4 GB |
Trans-ABySS | Â | Â | Â | Â | Â | Â | Â | Â |
20 | 99492 | 1581 | 27631 | 11103 | 75.7% | 90854 (91.3%) | 5118 (5.1%) | 8 GB |
50 | 62731 | 1980 | 27262 | 12151 | 86.0% | 57508 (91.7%) | 2786 (4.4%) | 8 GB |
kCombine(Trans-ABySS) | Â | Â | Â | Â | Â | Â | Â | Â |
3 | 119772 | 2628 | 27612 | 22113 | 79.3% | 99021 (82.7%) | 22638 (18.9%) | 4 GB |
5 | 80966 | 3009 | 27612 | 23110 | 84.5% | 64161 (79.2%) | 22012 (27.2%) | 4 GB |