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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)    total unique mem    total unique mem splicing   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
  1. For Oases and Trinity, the predicted unit is locus that contains a set of predicted transcripts, N50 denotes the N50 value of the longest transcript length in a predicted locus, and predicted transcripts of length at least 100 are retained. Other notations are the same as in Table 2
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