From: Erratum to: A benchmark for RNA-seq quantification pipelines
Method | SD low | SD medium | SD high | NE (K = 1) | NN (K = 1) | TxDiff low | TxDiff medium | TxDiff high | deFC low | deFC medium | deFC high | pAUC |
---|---|---|---|---|---|---|---|---|---|---|---|---|
Cufflinks | 0.62 (0.002) | 0.26 (0.001) | 0.12 (0.000) | 0.08 | 0.70 | 0.31 (0.007) | 0.08 (0.002) | 0.03 (0.001) | 2.65 (0.022) | 2.25 (0.047) | 1.01 (0.024) | 0.77 |
eXpress | 0.53 (0.002) | 0.22 (0.001) | 0.10 (0.000) | 0.07 | 0.72 | 0.24 (0.006) | 0.06 (0.002) | 0.02 (0.001) | 2.86 (0.022) | 2.21 (0.048) | 1.00 (0.019) | 0.79 |
Flux Capacitor | 0.62 (0.003) | 0.57 (0.003) | 0.18 (0.001) | 0.10 | 0.73 | 0.42 (0.008) | 0.15 (0.004) | 0.07 (0.003) | 2.62 (0.024) | 2.40 (0.050) | 1.01 (0.025) | 0.75 |
kallisto | 0.53 (0.002) | 0.24 (0.001) | 0.12 (0.000) | 0.09 | 0.64 | 0.28 (0.007) | 0.08 (0.002) | 0.03 (0.0001 | 2.36 (0.024) | 2.06 (0.045) | 1.03 (0.024) | 0.76 |
RSEM | 0.54 (0.002) | 0.22 (0.001) | 0.11 (0.000) | 0.06 | 0.73 | 0.39 (0.008) | 0.07 (0.002) | 0.02 (0.001) | 2.72 (0.022) | 2.22 (0.048) | 1.03 (0.026) | 0.78 |
Sailfish | 0.46 (0.002) | 0.25 (0.001) | 0.13 (0.000) | 0.08 | 0.60 | 0.27 (0.006) | 0.08 (0.002) | 0.04 (0.001) | 2.30 (0.023) | 2.08 (0.044) | 0.97 (0.022) | 0.77 |
Salmon | 0.46 (0.002) | 0.23 (0.001) | 0.12 (0.000) | 0.08 | 0.65 | 0.29 (0.007) | 0.07 (0.002) | 0.04 (0.001) | 2.30 (0.024) | 2.06 (0.045) | 1.03 (0.022) | 0.77 |