Table 1 Comparison of CPU usage and “rejection” rates of INSPEcT and SSRE. The same batch (subset of the data described above) were provided to both methods (implemented in R). The output size refers to the number of transcripts that can be processed by the method and the speed-up is the ratio of INSPEcT over SSRE transcript processing time. SSRE is about 42 times faster than INSPEcT with (0.8 ms vs 34 ms per processed transcript). However, SSRE also discards more transcripts than INSPEcT, providing rates for 38% of them vs 47% for INSPEcT. Those low numbers can be explained by the fact that many transcripts (especially non-coding ones) have a very low expression that is poorly estimated in the labeled RNA pool

From: Estimating RNA dynamics using one time point for one sample in a single-pulse metabolic labeling experiment