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Table 1 A comparison of the number of transcripts found and matched to a reference for the single-end reads SRR445718 (Human sample)

From: TraRECo: a greedy approach based de novo transcriptome assembler with read error correction using consensus matrix

Assembler # of candidates found # of transcripts matched for Target coverage of
≥ 95% ≥ 90% ≥ 80%
SOAPdenovo-trans 48,462 2613 3522 5349
Trans-ABySS 87,686 3626 4781 6967
Trinity 82,865 4008 5279 7680
BinPacker 20,612 3486 4314 5685
Multi-k OASES 202,152 5120 6737 9520
Bridger 58,217 4013 5093 7017
TraRECo, Dth = 0.06, CDth = 0 219,402 5366 7010 10,168
TraRECo, Dth = 0.06, CDth = 1 118,342 4845 6308 9078
TraRECo, Dth = 0.06, CDth = 2 109,551 4774 6209 8901
TraRECo, Dth = 0.06, CDth = 4 79,073 4537 5890 8393
TraRECo, Dth = 0.06, CDth = 6 58,396 4217 5436 7642
TraRECo, Dth = 0.06, CDth = 8 47,095 3937 5026 6973
TraRECo, Dth = 0.06, CDth = 12 35,506 3396 4305 5880
TraRECo, Dth = 0.06, CDth = 16 28,997 2959 3749 5089
  1. Except for Trinity, Cutadapt was used for read data trimming
  2. Target coverage = 95%, 90% and 80%. For TraRECo, the results with Dth = 0.06 and CDth = 0, 1, 2, 4, 6, 8, 12 and 16 are shown