Table 2 Summary of the key findings shown for each assembler
From: Comparing de novo transcriptome assembly tools in di- and autotetraploid non-model plant species
| Â | Diploid species | Tetraploid species | ||||
|---|---|---|---|---|---|---|
| Â | SO | TL | TR | SO | TL | TR |
Number of M transcripts | 0.13 (0.09) | 0.13 (0.08) | 0.21 (0.15) | 0.20 (0.14) | 0.25 (0.16) | 0.46 (0.36) |
Proportion of transcripts < 300 bp | 0.40 (0.20) | 0.24 (0.20) | 0.37 (0.25) | 0.38 (0.18) | 0.14 (0.10) | 0.32 (0.20) |
Proportion of good mappings | 0.68 (0.05) | 0.88 (0.08) | 0.82 (0.10) | 0.57 (0.16) | 0.90 (0.07) | 0.77 (0.12) |
Proportion of bases uncovered | 0.02 (0.01) | 0.06 (0.01) | 0.05 (0.01) | 0.02 (0.01) | 0.13 (0.01) | 0.06 (0.02) |
Complete BUSCOs | 1,266 (667) | 1,699 (381) | 1,615 (410) | 1,133 (714) | 1,916 (315) | 1,705 (340) |
Fragmented BUSCOs | 328 (177) | 188 (140) | 240 (156) | 419 (238) | 132 (129) | 276 (145) |
Reference coverage (proteins) excl. Vaccinium | 0.35 (0.03) | 0.42 (0.03) | 0.45 (0.01) | 0.34 (0.00) | 0.50 (0.10) | 0.51 (0.09) |
Reference coverage of A. thaliana cDNA | 0.18 | 0.21 | 0.25 | 0.18 | 0.38 | 0.25 |
Proportion of representative transcripts (cd-hit-est 95% sequence identity) | 0.97 (0.02) | 0.81 (0.04) | 0.86 (0.02) | 0.97 (0.03) | 0.63 (0.04) | 0.80 (0.10) |
Proportion of representative transcripts (cd-hit-est strict*) | 1.00 (0.00) | 0.92 (0.00) | 0.96 (0.01) | 1.00 (0.00) | 0.84 (0.01) | 0.94 (0.01) |