FcircSEC: An R Package for Full Length circRNA Sequence Extraction and Classification

Table 4

Comparison of FcircSEC with alternative methods.

Method	Prediction tools whose output is taken as input	Is RNA-seq data needed?	Classify circRNAs?	Limitation	Applicability
CIRI-full	CIRI	Yes	No	Not applicable for unequal read lengths in the RNA-seq data and for the annotation file in gff format	Applicable for the users of CIRI
FUCHS	DCC	Yes	No	Not applicable for short reads and cannot provide full-length circRNA sequence directly	Applicable for the users of DCC
circtools	DCC	Yes	No	Not applicable for short reads and cannot provide full-length circRNA sequence directly	Applicable for the users of DCC
CircPrimer	State-of-the-art circRNA prediction tools	No	No	Not applicable for other than human circRNAs and does not yield any information on splice sites within the circRNA sequence	Applicable for human circRNAs only
FcircSEC	State-of-the-art circRNA prediction tools	No	Yes	Does not yield any information on splice sites within the circRNA sequence	Applicable for almost all users of circRNA prediction tools