Last updated: 2018-05-12

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    rmd cc0ab83 Lei Sun 2018-05-11 update
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    rmd beffb01 LSun 2017-11-21 wflow_publish(c(“analysis/cash_sim_5.rmd”, “analysis/cash_sim_6.rmd”))

Introduction

We are using the data obtained from the large-scale simulation with real data to show the variability of the positive false discovery proportions obtained by different methods at nominal \(q\) value $ = 0.05$. The true effect distribution is \(0.6\delta_0 + 0.3N(0, 1) + 0.1N(0, 2^2)\).

z.mat <- readRDS("../output/z_null_liver_777.rds")
se.mat <- readRDS("../output/sebetahat_null_liver_777.rds")
beta.list <- readRDS("../output/beta.list.rds")
qvalue.list <- readRDS("../output/qvalue.list.rds")
qvalue.BH <- qvalue.list$qvalue.BH
qvalue.qvalue <- qvalue.list$qvalue.qvalue
qvalue.locfdr <- qvalue.list$qvalue.locfdr
qvalue.ash <- qvalue.list$qvalue.ash
qvalue.gdash <- qvalue.list$qvalue.gdash

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Session information

sessionInfo()
R version 3.4.3 (2017-11-30)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.4

Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] vioplot_0.2 sm_2.2-5.4 

loaded via a namespace (and not attached):
 [1] workflowr_1.0.1   Rcpp_0.12.16      digest_0.6.15    
 [4] rprojroot_1.3-2   R.methodsS3_1.7.1 backports_1.1.2  
 [7] git2r_0.21.0      magrittr_1.5      evaluate_0.10.1  
[10] stringi_1.1.6     whisker_0.3-2     R.oo_1.21.0      
[13] R.utils_2.6.0     rmarkdown_1.9     tools_3.4.3      
[16] stringr_1.3.0     yaml_2.1.18       compiler_3.4.3   
[19] htmltools_0.3.6   knitr_1.20       



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