Benchmark QuagmiR

The base of our simulated reads are human mature miRNAs from miRbase.

We simulated all biological scenarios described in the literature:

• Drosha and Dicer miscleavage leading to 5' and 3' templated gain and losses (Gu et al. Cell. 2012 and Ma et al. PNAS 2013). To this aim nucleotides from the miRNA hairpin were added to the mature miRNA sequence.
• Trimming and tailoring events described on the 3' end (Ameres et al. Science 2010) were simulated with an untemplated gain and loss of nucleotides.
• Internal editing events such as A-to-I (Li et al. Genome Res. 2017) were simulated by single nucleotide changes in the mature sequence.

Example:

Code:

QuagmiR benchmark scripts QuagmiR simulated reads

Acknowledgements:

S. Nesic who modified previous scripts from L. Pantano and run the analysis on QuagmiR and other miRNA aligners.