I am new to the miRNA analysis work, I have some sample reads (human) which I need to map to the reference genome and then detect the number of miRNA present in it. I have done some literature survey on the algorithms which are used for the miRNA analysis like mirDeep2, Shrimp, miRExpress, miRanalyzer.
1) But the point in which I'm concerned is, which of these algorithms gives us a better result? 2) With which algorithm should I go further?
If anyone of you have previously carried out an miRNA analysis then please guide me regarding this. Or if you have any other suggestions it would be really helpfull for me.
Thanking you in advance.