Has anyone used the miRDeep* software for miRNA-seq data analysis?

There are many publications which cites miRDEEP* :

http://www.ncbi.nlm.nih.gov/pubmed/23221645

http://www.nature.com/nbt/journal/v26/n4/abs/nbt1394.html

MiRDeep and its varieties are widely used to quantify known and novel miRNA from small RNA sequencing.

Known and novel miRNA expression levels, as measured by the number of reads, are displayed in an interface which shows each RNAseq read relative to the pre-miRNA hairpin.

The secondary pre-miRNA structure and read locations for each predicted miRNA are shown and kept in a separate figure file.

Moreover, the target genes of identified known and novel miRNAs are predicted and the targets are ranked according to the confidence score.

MiRDeep* is an integrated standalone application where sequence alignment, pre-miRNA secondary structure calculation, and graphical display are purely java-coded.

Simonas Juzenas

MiRDeep*, mirDeep and mirDeep2 are based on the same algorithms even though all of them are different. And there is just one paper which I found on miRDeep* (http://www.ncbi.nlm.nih.gov/pubmed/23221645) and its original paper of this application. But maybe someone who has their own experience on working with miRDeep* version can say something about it?