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Table 2 Comparison of different tools in miRNA detection

From: CAP-miRSeq: a comprehensive analysis pipeline for microRNA sequencing data

  CAP-miRSeq omiRAS miRTools2 Novoalign
Version v1.1 12/2013 v2 2.07.13
Aligner Bowtie Bowtie SOAP Novoalign+
Ref Genome hg19 hg19 hg19 hg19
Time 5 hrs 12 hrs Variable 6 hrs
Memory 4 GB - - 10 G
Mature miRNA (> = 2) 860 739 172 881
Novel miRNA 194 NA* 35 No prediction
Correlation with other tools - 0.99 0.81 0.95
  1. *NA–omiRAS requires at least two samples to run with differential expression analysis; however, it does not report novel miRNAs for each individual sample. +Novoalign is just an alignment toot and it does not perform miRNA prediction and quantification. omiRAS and miRTool2 are web based tools and no memory usage information is available.