Samples | Expected ER | SRER | SRER Bias | EER_CS | EER_CS Bias | EER_RS | EER_RS Bias |
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SRR002053 | 0.5548 | 0.4153 | 0.1395 | 0.4609 | 0.0939 | 0.4565 | 0.0983 |
SRR002056 | 0.3646 | 0.2906 | 0.0740 | 0.3270 | 0.0376 | 0.3233 | 0.0413 |
SRR002065 | 0.4578 | 0.3371 | 0.1207 | 0.3740 | 0.0838 | 0.3701 | 0.0877 |
SRR005092 | 0.6300 | 0.4047 | 0.2253 | 0.4797 | 0.1503 | 0.4727 | 0.1573 |
SRR005093 | 0.4839 | 0.3928 | 0.0911 | 0.4221 | 0.0618 | 0.4173 | 0.0666 |
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aBased on 1000 replicates. The frequency-based simulation approach was applied. For each replicate, we considered the top 1000 reads with the highest frequencies as the error-free reads and generated 1000 pairs of error-free read counts and shadow counts
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Expected ER expected error rate in simulation studies
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SRER error rate estimated using shadow regression
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SRER Bias the absolute value of the difference between SRER and Expected ER
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EER_CS empirical error rate estimated using cubic smoothing spline
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EER_CS Bias the absolute value of the difference between EER_CS and Expected ER
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EER_RS empirical error rate estimated using robust smoothing spline
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EER_RS Bias the absolute value of the difference between EER_RS and Expected ER