Table 2.
An overview of the bioinformatics tools available for the prediction of circRNAs.
| Tools | Latest version | Mapper | Websites | Reference |
|---|---|---|---|---|
| circRNA finder | N/A | STAR | https://github.com/orzechoj/circRNA_finder | Westholm et al., 2014 |
| CIRCexplorer | 1.1.10 | Bowtie1 and 2 | https://github.com/YangLab/CIRCexplorer | Zhang et al., 2014 |
| CIRI | 1.2 | Bwa | https://sourceforge.net/projects/ciri/files/ | Gao et al., 2015 |
| find circ | v2 | Bowtie2 | https://github.com/marvin-jens/find_circ | Memczak et al., 2013 |
| Mapsplice | 2.2.1 | Bowtie1 | http://www.netlab.uky.edu/p/bioinfo/MapSplice2 | Wang et al., 2010 |
| circseq-cup | 1.0 | STAR | http://ibi.zju.edu.cn/bioinplant/tools/circseq-cup.htm | Ye et al., 2017 |
| KNIFE | 1.4 | Bowtie, Bowtie2 | https://github.com/lindaszabo/KNIFE | Szabo et al., 2015 |
| Segemehl | 0.2.0 | Segemehl | http://www.bioinf.uni-leipzig.de/Software/segemehl/ | Hoffmann et al., 2014 |
| UROBORUS | 0.0.2 | Bowtie, Bowtie2, tophat2 | http://uroborus.openbioinformatics.org/en/latest/ | Song et al., 2016 |