Question: How to collapse redundant miRNAs predicted by miRDeep2?

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2 hours ago by

I am using miRDeep2 to predict novel miRNAs across multiple samples for differential expression analysis. Here are some of my questions:

  1. How do I make a list of novel miRNAs across samples?
  2. In each sample, there are identical mature miRNAs derived from different loci, since I'm only interested in the expression profile of mature miRNAs, not their genomic location, I have to remove the redundant predictions from the list. How can I do this?
  3. How to name my newly discovered miRNAs?

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