Table 1 Comparison of functionalities of currently available isomiR analysis tools
From: IsomiR_Window: a system for analyzing small-RNA-seq data in an integrative and user-friendly manner
Multiple input files | Identification of sncRNAs | Types of IsomiRs | Novel miRNA | DE* | miRNA targets | Functional analysis | GUI | |
|---|---|---|---|---|---|---|---|---|
IsomiR Window | ▪ | ▪## | f | ▪ | ▪ | ▪ | ▪ | ▪ |
CPSS2.0 | ▪ | a,b,c | ▪ | ▪ | ▪ | ▪ | ▪ | |
DeAnnIso | a,b,c | ▪ | ▪ | ▪ | ▪ | |||
miR-isomiRExp | a,b,d | ▪ | ||||||
mirSpring | a,b | ▪ | ||||||
IsomiRage | a,b | ▪ | ||||||
isomiRID | a,b,c,d,e | ▪ | ||||||
miRMOD | a,b,d | ▪ | ▪ | |||||
Chimira | ▪ | a,b,c,d,e | ▪ | |||||
sRNAtoolbox | ▪ | ▪ | f | ▪ | ▪ | ▪ | ▪ | ▪ |
CBS-miRSEQ | ▪ | ▪ | a,b | ▪ | ▪ | ▪ | ▪ | |
CAP-miRSEQ | ▪ | ▪ | ▪ | ▪ | ||||
UEA- Small RNA Workbench | ▪ | ▪ | ▪ | ▪ | ▪ |