Heuristic pairwise alignment of de Bruijn graphs to facilitate simultaneous transcript discovery in related organisms from RNA-Seq data

Table 1 Comparisons of the number of predicted transcripts in the test on mouse against rat from Oases and from Mutual over different values of k and k-mer coverage cutoff c.

Note that these numbers are not directly comparable between Oases and Mutual since the predicted transcripts from Mutual are obtained by extending similar paths that appear in the two organisms with an e-value cutoff of 0.1 from bl2seq, while the predicted transcripts from Oases are obtained independently in each organism without such constraints.

ISSN: 1471-2164