Multiple hypothesis testing is a major issue in genome-wide association studies (GWAS), which often analyze millions of markers. The permutation test is considered to be the gold standard in multiple testing correction as it accurately takes into account
Learn more: How can I estimate R-squared for a model estimated with multiply imputed data? | Stata FAQ (ucla.edu) Step 6. Saving results with outreg2 You can also save the results based on regressions with multiple imputations by using outreg2 command. To save the results with R2 from...
Nagy, R. et al. Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants. Genome Med. 9, 23 (2017). Article PubMed PubMed Central CAS Google Scholar Aulchenko, Y. S. et al. Loci influencing lipid levels and corona...
R. VAN GINKEL AND P. M. KROONENBERG sense that different occasions (third mode) are nested within cases (first mode). Conse- quently, multilevel imputation is an appropriate way to impute missing data in three-mode data. Currently, there are two approaches to perform multiple imputation ...
https://stats.oarc.ucla.edu/r/faq/how-do-i-perform-multiple-imputation-using-predictive-mean-matching-in-r/ Murray, J. S. (2018)Multiple imputation: a review of practical and theoretical findings https://projecteuclid.org/journals/statistical-science/volume-33/issue-2/Multiple-Imputation-A-...
mtCOJO analyses were performed using GCTA software v.1.94.1, whereas other statistical analyses were performed using R v.4.3.1. Specific R packages and their versions used included: the mice package (v.3.16.0) for data imputation; the survival package (v.3.5.7) for performing Cox proportiona...
Subject Re: st: Mixing xtmixed and multiple imputation Date Wed, 16 Oct 2013 20:56:04 +0200Alden, I suspect r(table) holds the results obtained from -xtmixed- in the last (in your case the 11th) imputed dataset, while the output in the results window shows the combined results from al...
Subject Re: st: ICE with Interval Error #459 multiple imputation Date Tue, 21 Aug 2012 18:56:47 +0100Dear Antonis, Thank you very much for solving my problem! Using the ologit prefix combined with your example for how to set my upper and lower limits solved everything. For anyone else...
indirectly measure and control the Type I error rate [7]; a two-stage analysis of the data can be used not only to decrease the Type I error rate [8], but also to decrease the genotyping costs incurred [9]; genotype imputation can result in a net increase in statistical power [10,...
Genome-wide imputation was performed using reference Finnish whole-genome sequence data. Disease endpoints were defined using nationwide registries based on ICD (and other) codes. A subset of unrelated individuals of genetically confirmed Finnish ancestry was identified. GWAS was performed using SAIGE (...