Summary of bioinformatic tools that detect bacterial small RNAs and their genes
| Tool name | Input is bacterial genome | Input is sequencing data | Homology/Conservation based | Reference | GitHub or website link |
| Transterm | ✓ | 90 | https://transterm.cbcb.umd.edu | ||
| ARNold | ✓ | 91 | http://rssf.i2bc.paris-saclay.fr/toolbox/arnold/ | ||
| RNIE | ✓ | 92 | https://github.com/ppgardne/RNIEs | ||
| sRNADetect | ✓ | 44 | https://github.com/BioinformaticsLabAtMUN/sRNA-Detect | ||
| Rockhopper | ✓ | 93 | https://cs.wellesley.edu/%7Ebtjaden/Rockhopper/ | ||
| APERO | ✓ | 94 | https://github.com/Simon-Leonard/APERO/blob/master/example/script.R | ||
| DET’RPROK | ✓ | 95 | http://rssf.i2bc.paris-saclay.fr/Software/detrprok.php | ||
| BLAST | ✓ | ✓ | 89 | https://blast.ncbi.nlm.nih.gov/Blast.cgi | |
| GLASSgo | ✓ | ✓ | 96 | https://github.com/lotts/GLASSgo |