iMir workflow. Graphic summary of iMir workflow: the pipeline accepts NGS data as input and then proceeds automatically to perform several independent analyses, most of which can be selected or excluded according to the user’s needs. Dotted lines represent optional steps of the pipeline. (A) Module 1: Pre-process analyis. (B) Module 2: Detection of known miRNAs. (C) Module 3: Detection of other sncRNAs and novel miRNAs prediction. (D) Module 4: Statistical analysis to remove low expressed sncRNAs. (E) Module 5: Differential expression analysis. (F) Module 6: Target prediction.