Table 5

The effect of quality score modeling on quantification accuracy

Simulation model

Estimation model

MPE

10% EF

FP


theoretical

quality

3.1/4.1/7.2

13.8/25.2/43.5

1.0/1.8/11.6

theoretical

profile

3.1/4.1/7.2

13.9/25.3/43.6

1.0/1.8/11.7

empirical

quality

3.1/4.0/7.0

14.2/25.3/43.0

1.2/2.0/11.4

empirical

profile

3.1/4.1/7.0

14.3/25.4/43.2

1.1/2.0/11.2


Accuracy of abundance estimates from RNA-Seq data sets with different combinations of sequencing error models for simulation and estimation. Values are given as gene/global isoform/within-gene isoform.

Li and Dewey BMC Bioinformatics 2011 12:323   doi:10.1186/1471-2105-12-323

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