From: Comparative performance of transcriptome assembly methods for non-model organisms
Assembly Strategy | Dataset used | # of contigs | Median length (bp) | Median %ID vs. dipteran | Median reference coverage vs. dipteran | Median %ID vs. aegypti | Median reference coverage vs. aegypti |
---|---|---|---|---|---|---|---|
De novo assembly | 180Ma | 96,980 | 414 | 90.95Â % | 98.37Â % | 91.32Â % | 98.38Â % |
360Â M | 141,390 | 394 | 90.57Â % | 98.21Â % | 91.02Â % | 98.14Â % | |
600Â M | 176,168 | 385 | 90.43Â % | 98.37Â % | 90.97Â % | 98.33Â % | |
Reference-based re-assembly | 180Â M | 89,260 | 399 | 91.04Â % | 98.46Â % | 91.45Â % | 98.46Â % |
360Â M | 130,168 | 382 | 90.70Â % | 98.22Â % | 91.15Â % | 98.26Â % | |
600Â M | 162,168 | 373 | 90.57Â % | 98.39Â % | 91.10Â % | 98.45Â % | |
Transcriptome Post-Scaffolding | 180Â M | 11,796 | 1,783 | 92.18Â % | 99.40Â % | 92.57Â % | 99.40Â % |
360Â M | 12,027 | 1,854 | 91.97Â % | 99.40Â % | 92.41Â % | 99.39Â % | |
600Â M | 12,117 | 1,888 | 91.90Â % | 99.41Â % | 92.39Â % | 99.41Â % | |
Genome-guided assembly using Ae. albopictus genome | 180Â M | 43,537 | 1,091 | 90.95Â % | 97.56Â % | 91.28Â % | 97.78Â % |
360Â M | 57,524 | 1,038 | 90.73Â % | 97.57Â % | 91.05Â % | 97.77Â % | |
600Â M | 68,977 | 1,000 | 90.56Â % | 97.76Â % | 91.03Â % | 97.93Â % | |
Genome-guided assembly using Ae. aegypti genome + RAb | 180 M | 18,999 | 1,426 | 100.00 % | 100.00 % | 100.00 % | 100.00 % |
Genome-guided assembly using Ae. aegypti genome-RA | 180Â M | 13,230 | 348 | 100.00Â % | 42.47Â % | 100.00Â % | 42.89Â % |