I am facing problem in selecting novel microRNAs from small RNA sequencing. mirdeep 2 software was used for prediction of novel microRNAs. Is it necessary to have high mirdeep2 score with high mature read count. Those sequence with high mirdeep2 & mature read count have non significant RANDFOLD p value. I am confused in this part. Please help me out.
You can select the novel miRNA from miRDeep2 result file if the 'significant randfold p-value column is showing 'yes' and miRDeep2 score column value between +10 to -10.
Thanks alot Ganesh. I agree with you completely. But i am getting mirdeep2 score of 5000 to 30. The highest mirdeep score have high total & mature read count with non significant randfold p value with MFE in range of 1.8 - 2.4. I have very few predicted novel miRs with score of 10 and even less.
There is no issue with mirdeep2 score, you have to consider significant randfold p-value and
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