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IMPUTE2 assigns each imputed SNP an INFO score on the basis of imputation quality.
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The main effectiveness analysis was completed on an intention to treat (ITT) basis with imputation of missing data (see online supplementary text S2 and S3 for full details of analysis methods).
Missing data was handled by performing multiple imputation in which the candidate explanatory factors previously described were imputed on the basis of each other using chained imputation [ 19].
This is evaluated on a per locus basis, with imputation errors of both the low frequency and the high frequency allele being combined.
An investigation into the effect of the different methods of imputation on the treatment effects forms the basis of future work.
We used single imputation on the basis of linear regression on the logit scale.
Two papers applied MICE as well as PMM, and the remaining 7 papers, used MI on the basis of propensity score or regression-based imputation.
On the basis of our findings, we propose an imputation framework with two basic components: (i) a cosmopolitan reference panel and (ii) a new algorithmic approximation that maintains the accuracy of large, diverse panels while controlling computational costs.
When unsupervised imputation was performed, missing values were imputed on the basis of outcomes reported for tests without taking into account the clinical truth.
Second, mutations that arose after the split of strain ancestors are missed from imputation techniques on the basis of a few highly divergent strains.
Sensitivity of imputation method: An imputation method is required for the derivation of PE.
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