Files in susieR

Sum of Single Effects Linear Regression

MD5

README.md

NAMESPACE

DESCRIPTION

LICENSE

R/update_each_effect.R R/sparse_multiplication.R R/susie_zzz_auto.R R/susie_plots.R R/compute_ss.R R/elbo.R R/remove_null_effects.R R/susie.R R/estimate_residual_variance.R R/susie_ss.R R/predict.susie.R R/data.R R/set_R_attributes.R R/elbo_ss.R R/initialize.R R/single_effect_regression.R R/susie_trendfilter.R R/single_effect_regression_rss.R R/trend_filtering_multiplication.R R/susie_rss.R R/susieR-package.R R/update_each_effect_ss.R R/univariate_regression.R R/single_effect_regression_ss.R R/susie_utils.R R/zzz.R R/update_each_effect_rss.R R/summary.susie.R R/initialize_rss.R R/susie_plot_changepoint.R R/elbo_rss.R R/susie_rss_lambda.R

inst/CITATION

inst/doc/susie_refine.R inst/doc/mwe.R inst/doc/susierss_diagnostic.Rmd inst/doc/susie_rss.Rmd

inst/doc/susierss_diagnostic.html

inst/doc/sparse_susie_eval.html

inst/doc/sparse_susie_eval.Rmd inst/doc/finemapping_summary_statistics.R inst/doc/trend_filtering.Rmd

inst/doc/mwe.html

inst/doc/susie_refine.Rmd inst/doc/finemapping_summary_statistics.Rmd

inst/doc/susie_rss.html

inst/doc/trend_filtering.R inst/doc/susierss_diagnostic.R

inst/doc/susie_refine.html

inst/doc/finemapping.html

inst/doc/mwe.Rmd inst/doc/susie_rss.R inst/doc/finemapping.Rmd inst/doc/trendfiltering_derivations.pdf inst/doc/finemapping.R

inst/doc/trendfiltering_derivations.Rnw

inst/doc/trend_filtering.html

inst/doc/sparse_susie_eval.R

inst/doc/finemapping_summary_statistics.html

inst/datafiles/N3finemapping.FINEMAP.RData

inst/datafiles/N3finemapping.DAP.RData

inst/datafiles/N3finemapping.CAVIAR.RData

inst/misc/pre-commit.sh

inst/misc/post-commit.sh

inst/analysis/optimize.Rmd inst/analysis/test_susie_auto.Rmd inst/analysis/testing.Rmd inst/code/compute_ss_memory.R inst/code/sparse_matrix_strategy.Rmd

inst/code/dap-g.py

inst/code/gen_original_results.R inst/code/finemap.R inst/code/susie_memory.R inst/code/finemap_1p4.R inst/code/susie_rss_memory.R inst/code/caviar.R

inst/code/monitor_memory.py

build/vignette.rds

build/partial.rdb

tests/testthat.R tests/README.md tests/testthat/test_intercept_standardize.R tests/testthat/test_susie_XtX_Xty.R tests/testthat/test_susie_get_cs.R tests/testthat/test_susie_rss.R

tests/testthat/Eloglik_rss_lambda0_res.rds

tests/testthat/test_get_pip.R

tests/testthat/est_V_debug.rds

tests/testthat/test_get_ER2.R tests/testthat/test_compute_colsds.R

tests/testthat/susierssfit_lambda1_res.rds

tests/testthat/test_get_ER2_rss.R

tests/testthat/Eloglik_rss_lambda1_res.rds

tests/testthat/SER_rss_lambda1_res.rds

tests/testthat/test_sparse_multiplication.R

tests/testthat/ER2_rss_lambda1_res.rds

tests/testthat/ER2_original_res.rds

tests/testthat/test_prior_weights.R tests/testthat/test_single_effect_regression.R

tests/testthat/SER_original_res.rds

tests/testthat/test_susie.R tests/testthat/test_Eloglik.R tests/testthat/test_susie_rss_get_objective.R tests/testthat/test_susie_get_objective.R tests/testthat/test_susie_trendfilter.R

tests/testthat/singleReg_original_res.rds

tests/testthat/susiefit_original_res4.rds

tests/testthat/objective_rss_lambda1_res.rds

tests/testthat/susiefit_original_res3.rds

tests/testthat/helper_testthat.R tests/testthat/test_null_weight.R

tests/testthat/susiefit_original_res2.rds

tests/testthat/susierssfit_lambda0_res.rds

tests/testthat/SER_rss_lambda0_res.rds

tests/testthat/test_SER_posterior_e_loglik.R

tests/testthat/vbupdate_rss_lambda0_res.rds

tests/testthat/Eloglik_original_res.rds

tests/testthat/test_comput_tf.R

tests/testthat/singleReg_rss_lambda0_res.rds

tests/testthat/test_Eloglik_rss.R tests/testthat/test_SER_posterior_e_loglik_rss.R tests/testthat/test_update_each_effect_rss.R

tests/testthat/susiefit_original_res.rds

tests/testthat/objective_original_res.rds

tests/testthat/test_small_resid.R tests/testthat/test_update_each_effect.R tests/testthat/test_sparse_safe_colScale.R tests/testthat/test_init.R tests/testthat/test_get_samples.R

tests/testthat/vbupdate_original_res.rds

tests/testthat/test_single_effect_regression_rss.R

tests/testthat/vbupdate_rss_lambda1_res.rds

tests/testthat/singleReg_rss_lambda1_res.rds

tests/testthat/test_est_V.R tests/testthat/test_susie_beta_se.R

tests/testthat/objective_rss_lambda0_res.rds

tests/testthat/ER2_rss_lambda0_res.rds

vignettes/susierss_diagnostic.Rmd vignettes/susie_rss.Rmd vignettes/sparse_susie_eval.Rmd vignettes/trend_filtering.Rmd vignettes/susie_refine.Rmd vignettes/finemapping_summary_statistics.Rmd vignettes/mwe.Rmd vignettes/finemapping.Rmd

vignettes/trendfiltering_derivations.Rnw

vignettes/trendfiltering_derivations.bib

data/FinemappingConvergence.RData

data/SummaryConsistency.RData

data/N2finemapping.RData

data/N3finemapping.RData

man/susie_plot_changepoint.Rd man/susie_init_coef.Rd man/susieR-package.Rd man/susie_get_methods.Rd man/univariate_regression.Rd man/coef.susie.Rd man/kriging_rss.Rd man/predict.susie.Rd man/single_effect_regression.Rd man/compute_ss.Rd man/susie_trendfilter.Rd man/susie.Rd man/compute_suff_stat.Rd man/N2finemapping.Rd man/susie_rss.Rd man/estimate_s_rss.Rd man/FinemappingConvergence.Rd man/susie_auto.Rd man/SummaryConsistency.Rd man/N3finemapping.Rd man/summary.susie.Rd man/susie_plots.Rd man/get_cs_correlation.Rd

susieR documentation built on March 7, 2023, 6:11 p.m.