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Table 2 Sensitivity and PPV comparison between methods for different combinations of read and fragment lengths: (50 bp, 250 bp), (100 bp, 250 bp), (100 bp, 500 bp), (200 bp, 250 bp), (400 bp, 450 bp).

From: Transcriptome assembly and quantification from Ion Torrent RNA-Seq data

Read Fragment length Methods # assembled transcripts # confirmed annotated transcripts Sensitivity (%) PPV (%)
50 250 Cufflinks 18,483 14,179 67.36 76.71
   MaLTA 20,036 15,894 75.53 79.33
   IsoLasso 19,422 15,287 70.66 78.71
100 250 Cufflinks 17,981 14,073 69.30 78.27
   MaLTA 19,405 15,539 76.72 80.08
   IsoLasso 16,864 12,802 62.60 75.91
  500 Cufflinks 18,958 14,757 67.19 77.84
   MaLTA 20,481 16,326 74.73 79.71
   IsoLasso 17,979 13,428 60.29 74.69
200 250 Cufflinks 20,435 15,637 66.57 76.52
   MaLTA 21,823 17,265 74.89 79.11
   IsoLasso 19,422 15,287 70.66 78.71
400 450 Cufflinks 18,483 14,179 67.36 76.71
   MaLTA 20,036 15,894 75.53 79.33
   IsoLasso 19,422 15,287 70.66 78.71