Fig. 6

Comparison of running time and memory usage with respect to number of samples. a CPU time, (b) run time and (c) maximum memory usage on a serial run of multiple human paired-end RNA-seq data of library size 60–80 million reads, measured on a machine with Intel Xeon 2.90 GHz CPUs. The X values of (a) and (b) are incremented as each library (in an arbitrary order) is added to the run. The slopes of (a) and (b) are plotted in (d) and (e), respectively, in hours per 50 million reads. Alignment process is not included in the comparison. (f) A chart that summarizes quantification programs based on our results, in relative accuracy, speed and memory for data processing and speed and memory for indexing