Disease-Associated Circular RNAs: From Biology to Computational Identification

Table 2

Summary of computational pipelines for optional analysis of circRNAs.

Name	Year	Description	Web links	Last updated	Refs.
CircTest	2016	Test the variation of circRNAs in respect to host genes	https://github.com/dieterich-lab/CircTest	01-04-2016	[190]
CIRI-AS	2016	Alternative splicing detection	https://sourceforge.net/projects/ciri/files/CIRI-AS	07-04-2016	[191]
sailfish-cir	2017	Quantification using model-based framework	https://github.com/zerodel/Sailfish-cir	05-04-2017	[192]
FUCHS	2017	Towards full circRNA characterization	https://github.com/dieterich-lab/FUCHS	09-28-2017	[193]
CircRNAwrap	2019	Transcript prediction and abundance estimation	https://github.com/liaoscience/circRNAwrap	04-19-2019	[194]
CIRI-full	2019	Full-length assembly	https://sourceforge.net/projects/ciri/	04-16-2020	[195]
circMeta	2020	Genomic feature annotation, differential expression analysis for circRNAs	https://github.com/lichen-lab/circMeta	10-01-2019	[196]
CIRIquant	2020	Quantification and differential expression analysis	https://sourceforge.net/projects/ciri/files/CIRIquant/	04-16-2020	[197]

NA: not applicable. Last access date: 05-25-2020.