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Table 2 Median percent error (MPE) and 15% error fraction (EF.15) for isoform expression levels inferred from 30 M reads of length 25 simulated assuming geometric isoform expression.

From: Estimation of alternative splicing isoform frequencies from RNA-Seq data

Expression range 0 (0, 10-6] (10-6, 10-5] (10-5, 10-4] (10-4, 10-3] (10-3, 10-2] All
# isoforms 13,290 10,024 23,882 18,359 1,182 66 66,803
  Uniq 0.0 100.0 98.4 97.1 98.5 96.6 95.4
  Rescue 0.0 294.7 75.5 49.2 30.4 28.3 71.9
MPE UniqLN 0.0 100.0 80.8 30.3 26.4 24.8 36.0
  Cufflinks 0.0 100.0 49.7 25.5 27.2 44.6 34.1
  RSEM 0.0 100.0 31.9 13.5 11.4 13.0 21.2
  IsoEM 0.0 100.0 25.3 7.3 3.2 2.2 12.0
  Uniq 0.2 98.4 97.2 96.9 97.0 95.5 78.0
  Rescue 48.4 95.5 86.2 73.1 61.5 56.1 76.0
EF.15 UniqLN 0.2 97.2 86.2 82.8 83.3 77.3 69.8
  Cufflinks 17.6 96.4 81.3 71.0 74.7 80.3 67.9
  RSEM 19.9 93.7 71.1 46.4 39.8 47.0 56.9
  IsoEM 3.4 93.1 65.1 29.1 11.1 7.6 46.1