Fig. 3
Comparisons of the change in the number of similar transcripts recovered by Oases and Trans-ABySS (shown as white bar) to the change in the number of similar transcripts recovered by extVelvet and extABySS (shown as grey bar) respectively over the number of similar transcripts recovered by Velvet and ABySS (shown under the x-axis) respectively for different values of k and k-mer coverage cutoff c. Within each graph, the corresponding values of k_c are 25_3, 25_5, 25_10, 31_3, 31_5, 31_10 from left to right for smaller data sets, including D. melanogaster, L. sericata, C. arietinum, M. albus and M. siculus, and 25_10, 25_20, 25_50, 31_10, 31_20, 31_50 from left to right for larger data sets, including S. pombe, H. sapiens, A. thaliana, H. glaber and C. sociabilis. When comparing each model organism against itself (graphs with a single-species label), nucleotide BLAST search is applied with e-value cutoff ef=10−100. In the other cases, translated BLAST search is applied with e-value cutoff ef=10−20