From: Methylation data imputation performances under different representations and missingness patterns
MAE | RMSE | |||
---|---|---|---|---|
Method | M-value | B-value | M-value | B-value |
(a) Healthy datasets | ||||
mean | 0.022 ±0.001∗ | 0.023 ±0.001 | 0.043 ±0.001∗ | 0.044 ±0.001 |
impute.knn | 0.041 ±0.012 | 0.033 ±0.006∗ | 0.086 ±0.021 | 0.077 ±0.014∗ |
softImpute | 0.026 ±0.002 | 0.023 ±0.003 | 0.052 ±0.006 | 0.046 ±0.010∗ |
imputePCA | 0.019 ±0.001∗ | 0.020 ±0.001 | 0.039 ±0.002∗ | 0.039 ±0.001 |
SVDmiss | 0.029 ±0.001 | 0.021 ±0.001∗ | 0.061 ±0.003 | 0.041 ±0.002∗ |
missForest | 0.019 ±0.001∗ | 0.020 ±0.001 | 0.037 ±0.002∗ | 0.038 ±0.001 |
methyLImp | 0.022 ±0.001∗ | 0.019 ±0.001 | 0.040 ±0.002∗ | 0.039 ±0.002 |
(b) Disease datasets | ||||
mean | 0.036 ±0.001∗ | 0.037 ±0.001 | 0.068 ±0.002∗ | 0.069 ±0.002 |
impute.knn | 0.063 ±0.014 | 0.048 ±0.008∗ | 0.120 ±0.020 | 0.102 ±0.015∗ |
softImpute | 0.040 ±0.005 | 0.036 ±0.004∗ | 0.076 ±0.010 | 0.072 ±0.013∗ |
imputePCA | 0.031 ±0.001∗ | 0.032 ±0.001 | 0.061 ±0.002∗ | 0.062 ±0.002 |
SVDmiss | 0.047 ±0.001 | 0.035 ±0.001∗ | 0.089 ±0.003 | 0.070 ±0.003∗ |
missForest | 0.031 ±0.001∗ | 0.032 ±0.001 | 0.060 ±0.002∗ | 0.061 ±0.002 |
methyLImp | 0.032 ±0.001 | 0.028 ±0.001∗ | 0.063 ±0.003 | 0.058 ±0.002∗ |