Performance assembling transcripts from RNA-seq data. The performance of each of three assemblers on 12 RNA-seq data sets is illustrated. The 12 RNA-seq data sets correspond to nine bacteria, two archaea, and one fungus. (A) Specificity is the percentage of assembled transcripts that align to the genome. (B) Sensitivity is the percentage of the reference gene sequences that is covered by assembled transcripts aligning to the reference genes. (C) Contiguity is the percentage of reference genes that are at least δ = 80% covered by their single longest aligning transcript. (D) RMBT is the percentage of sequencing reads to align to assembled transcripts. (E) Execution time is the number of minutes that an assembler requires to execute on the RNA-seq data set.