Skip to main content

Table 3 Comparison of RNAspa's run-time with that of other methods

From: RNAspa: a shortest path approach for comparative prediction of the secondary structure of ncRNA molecules

Family Average run-time per sequence in seconds
  RNAspa StemLoc pmMulti FoldAlignM RNAcast
tRNA 13 47 21 549 <1
Tymo 8 70 12 93 <1
SAM 13 3 18 248 <1
Lysine 20 11 69 1076 <1
Purine 84 339 135 1518 <1
Cobalamin 133 105 no data no data <1
FMN 56 6 141 5042 <1
glmS 58 60 no data no data no data
  1. For all datasets, except glmS which did not yield results, the runtime of RNAcast was less than one second. RNAspa always ran faster than pmMulti and FoldAlignM. In four of eight families it ran faster than StemLoc and its overall running time is better than StemLoc's run-time.