Table 1 Overview of circRNA detection methods.
From: Acfs: accurate circRNA identification and quantification from RNA-Seq data
Tool | De novo? | Check splice site | Realignment | Single-end? | Mapper | Version |
|---|---|---|---|---|---|---|
acfs | yes | full | yes | yes | BWA-MEM | 2.2 |
segemehl | yes | no | no | yes | segemehl | 0.2.0 |
CIRCexplorer | no | GU-AG GC-AG AU-AC | no | yes | STAR | 1.1.3 |
KNIFE | no | no | no | yes | Bowtie1 and 2 | NA |
MapSplice2 | no | no | no | yes | Bowtie1 | 2.2.0 |
circRNA_finder | yes | GU-AG GC-AG AU-AC | no | no | STAR | NA |
CIRI | yes | GU-AG | no | yes* | BWA-MEM | 1.2 |
find_circ | yes | GU-AG | no | no | Bowtie2 | 1.0 |
