Mirinho is a flexible and efficient method for the prediction of pre-miRNAs. Its flexibility rests on the types of data that may be given as input (both genomic and sRNA-seq data) and on its parameters that allow for the prediction in both animal and plant species. The code may be recovered here. It is under the Cecill License.
More details about the methodology is available in the corresponding paper:
S. Higashi, C. Fournier, C. Gautier, C. Gaspin, and M.-F. Sagot. Mirinho: An efficient and general plant and animal pre-miRNA predictor for genomic and deep sequencing data. BMC Bioinformatics, 16(1):179, 2015.
Contact: Marie-France Sagot