Table 5 Comparisons of transcriptome assemblies of Oases, Trinity and ASplice on a small D. melanogaster data set with k=25 and over different values of k-mer coverage cutoff c
From: A scalable and memory-efficient algorithm for de novo transcriptome assembly of non-model organisms
D. mel | Oases | Trinity | ASplice | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
(small) | Â | Â | total | unique | mem | Â | Â | total | unique | mem | splicing | Â | total | unique | mem |
k_c | locus | N50 | hits | hits | (GB) | locus | N50 | hits | hits | (GB) | graphs | N50 | hits | hits | (GB) |
25_3 | 32277 | 748 | 46371 | 11311 | 26 | 50656 | 264 | 48079 | 9987 | 12 | 31949 | 305 | 30423 | 9560 | 9 |
25_5 | 21246 | 880 | 28366 | 9930 | 20 | 35797 | 254 | 34487 | 8412 | 12 | 20533 | 335 | 20061 | 8043 | 9 |
25_10 | 11509 | 842 | 15489 | 7075 | 18 | 20281 | 245 | 19759 | 5946 | 12 | 11243 | 338 | 11149 | 5722 | 9 |