├── .Rprofile ├── .gitattributes ├── .gitignore ├── LICENSE ├── README.md ├── _workflowr.yml ├── docs ├── .nojekyll ├── about.html ├── example.html ├── example_1.html ├── example_2.html ├── example_3.html ├── example_4.html ├── example_5.html ├── example_5a.html ├── example_5b.html ├── faq.html ├── function.html ├── height2014_data.html ├── images │ ├── LD1.png │ ├── LD2.png │ ├── LD3.png │ ├── pve2polygenic_1.png │ ├── pve2polygenic_2.png │ ├── pve2sparse_1.png │ ├── pve2sparse_2.png │ ├── rss_example1_pve.png │ ├── rss_example3_posterior.png │ ├── rss_example4_rep100.png │ ├── rss_gsea.png │ ├── twose_pip.png │ └── twose_pve.png ├── index.html ├── input_data.html ├── license.html ├── news.html ├── recombination.html ├── setup.html ├── setup_mcmc.html ├── setup_vb.html └── site_libs │ ├── accessible-code-block-0.0.1 │ └── empty-anchor.js │ ├── bootstrap-3.3.5 │ ├── css │ │ ├── bootstrap-theme.css │ │ ├── bootstrap-theme.css.map │ │ ├── bootstrap-theme.min.css │ │ ├── bootstrap.css │ │ ├── bootstrap.css.map │ │ ├── bootstrap.min.css │ │ ├── cerulean.min.css │ │ ├── cosmo.min.css │ │ ├── darkly.min.css │ │ ├── flatly.min.css │ │ ├── fonts │ │ │ ├── Lato.ttf │ │ │ ├── LatoBold.ttf │ │ │ ├── LatoItalic.ttf │ │ │ ├── NewsCycle.ttf │ │ │ ├── NewsCycleBold.ttf │ │ │ ├── OpenSans.ttf │ │ │ ├── OpenSansBold.ttf │ │ │ ├── OpenSansBoldItalic.ttf │ │ │ ├── OpenSansItalic.ttf │ │ │ ├── OpenSansLight.ttf │ │ │ ├── OpenSansLightItalic.ttf │ │ │ ├── Raleway.ttf │ │ │ ├── RalewayBold.ttf │ │ │ ├── Roboto.ttf │ │ │ ├── RobotoBold.ttf │ │ │ ├── RobotoLight.ttf │ │ │ ├── RobotoMedium.ttf │ │ │ ├── SourceSansPro.ttf │ │ │ ├── SourceSansProBold.ttf │ │ │ ├── SourceSansProItalic.ttf │ │ │ ├── SourceSansProLight.ttf │ │ │ └── Ubuntu.ttf │ │ ├── journal.min.css │ │ ├── lumen.min.css │ │ ├── paper.min.css │ │ ├── readable.min.css │ │ ├── sandstone.min.css │ │ ├── simplex.min.css │ │ ├── spacelab.min.css │ │ ├── united.min.css │ │ └── yeti.min.css │ ├── fonts │ │ ├── glyphicons-halflings-regular.eot │ │ ├── glyphicons-halflings-regular.svg │ │ ├── glyphicons-halflings-regular.ttf │ │ ├── glyphicons-halflings-regular.woff │ │ └── glyphicons-halflings-regular.woff2 │ ├── js │ │ ├── bootstrap.js │ │ ├── bootstrap.min.js │ │ └── npm.js │ └── shim │ │ ├── html5shiv.min.js │ │ └── respond.min.js │ ├── font-awesome-6.4.2 │ ├── css │ │ ├── all.css │ │ ├── all.min.css │ │ ├── v4-shims.css │ │ └── v4-shims.min.css │ └── webfonts │ │ ├── fa-brands-400.ttf │ │ ├── fa-brands-400.woff2 │ │ ├── fa-regular-400.ttf │ │ ├── fa-regular-400.woff2 │ │ ├── fa-solid-900.ttf │ │ ├── fa-solid-900.woff2 │ │ ├── fa-v4compatibility.ttf │ │ └── fa-v4compatibility.woff2 │ ├── header-attrs-2.28 │ └── header-attrs.js │ ├── highlightjs-9.12.0 │ ├── default.css │ ├── highlight.js │ └── textmate.css │ ├── jquery-3.6.0 │ ├── jquery-3.6.0.js │ ├── jquery-3.6.0.min.js │ └── jquery-3.6.0.min.map │ ├── jqueryui-1.13.2 │ ├── images │ │ ├── ui-icons_444444_256x240.png │ │ ├── ui-icons_555555_256x240.png │ │ ├── ui-icons_777620_256x240.png │ │ ├── ui-icons_777777_256x240.png │ │ ├── ui-icons_cc0000_256x240.png │ │ └── ui-icons_ffffff_256x240.png │ ├── index.html │ ├── jquery-ui.css │ ├── jquery-ui.js │ ├── jquery-ui.min.css │ ├── jquery-ui.min.js │ ├── jquery-ui.structure.css │ ├── jquery-ui.structure.min.css │ ├── jquery-ui.theme.css │ └── jquery-ui.theme.min.css │ ├── navigation-1.1 │ ├── codefolding-lua.css │ ├── codefolding.js │ ├── sourceembed.js │ └── tabsets.js │ └── tocify-1.9.1 │ ├── jquery.tocify.css │ └── jquery.tocify.js ├── examples ├── example1.m ├── example2.m ├── example3.m ├── example4.m └── example5 │ ├── example5_gene.m │ ├── example5_gsea.m │ ├── example5_null.m │ ├── example5_null.sbatch │ └── example5_simulated.m ├── misc ├── ash_lrt_31traits.R ├── band_storage.m ├── data_maker.m ├── enrich_datamaker.m ├── find_bandwidth.m ├── get_corr.R ├── get_corr.m ├── import_1000g_vcf.sh └── mvnloo.m ├── rmd ├── _site.yml ├── about.Rmd ├── example.Rmd ├── example_1.Rmd ├── example_2.Rmd ├── example_3.Rmd ├── example_4.Rmd ├── example_5.Rmd ├── example_5a.Rmd ├── example_5b.Rmd ├── faq.Rmd ├── function.Rmd ├── height2014_data.Rmd ├── index.Rmd ├── input_data.Rmd ├── license.Rmd ├── news.Rmd ├── recombination.Rmd ├── setup.Rmd ├── setup_mcmc.Rmd └── setup_vb.Rmd ├── rss.Rproj ├── src ├── README.md ├── calc_posterior_bvsr.m ├── compute_pve.m ├── propose_gamma.m ├── rss_ash.m ├── rss_bslmm.m ├── rss_bvsr.m ├── update_betatilde.m ├── update_bz.m └── update_zlabel.m └── src_vb ├── C ├── doublevectormatlab.c ├── doublevectormatlab.h ├── rss_varbvsr_update_matlab.c ├── rssvarbvsr.c ├── rssvarbvsr.h ├── sigmoid.c ├── sigmoid.h ├── sparsematrixmatlab.c ├── sparsematrixmatlab.h ├── types.h ├── vectorops.c └── vectorops.h ├── README.md ├── betavar.m ├── compute_pip.m ├── estimate_pve.m ├── gsea_single.m ├── gsea_template.m ├── gsea_wrapper.m ├── gsea_wrapper_fixsb.m ├── install.m ├── intgamma.m ├── intklbeta_rssbvsr.m ├── logpexp.m 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