e390b58bac470f0920e6644ea2f4ed51 *DESCRIPTION
b63638e6323f3fc108febfacc2abc5ca *LICENSE
a6f936c6e874bf04e8f3f606e509eb4f *NAMESPACE
7b572fae69e67f84e302a6ee8b5f9cbe *R/compute_ss.R
8fec294bde16d62458945ddbc05d5cba *R/data.R
66de9387436da126035171198c0d3ec6 *R/elbo.R
1f8e6e822ed400f480e1b9619bd24bfc *R/elbo_rss.R
b43d4f306fb1cfe6eff7faee0544c239 *R/elbo_ss.R
1596835bbfbd49fa531267a27cacd25d *R/estimate_residual_variance.R
338fa7b1a1046c03782a8141a5678e8b *R/initialize.R
749e003b08da519012d6cc8448dea9da *R/initialize_rss.R
df6d433909cc86f2c2647b26d386b2b0 *R/predict.susie.R
7f7e4202a663c07f87875d8c7d9e7cbc *R/remove_null_effects.R
9a45dfc594f3ca4177669d10829650e0 *R/set_R_attributes.R
b440c12fc37b3a4c33f37b55c0dcdc78 *R/single_effect_regression.R
2d5d9b6ea1e706321d2c7a8bb47b92fe *R/single_effect_regression_rss.R
c9a04a1b9d80830802906d9bc3a8f1de *R/single_effect_regression_ss.R
58f7f3431bd183a596e387e934a6779f *R/sparse_multiplication.R
5fb69a54bc552f32672b95155d2f563d *R/summary.susie.R
6b183d5e8299b137507e2a54008aa451 *R/susie.R
e0ef681901465d24f47f9139cb2c086a *R/susieR-package.R
d27fbda5b06f87333e617d52d0be0b25 *R/susie_plot_changepoint.R
8aebc5dc156b40007d4748420734f918 *R/susie_plots.R
cfd0619758bac992d26a4635307e322e *R/susie_rss.R
e989f558d5819f9823d435c87b4c9a3b *R/susie_rss_lambda.R
cbcecf3861f26e26db9e0784307e06b9 *R/susie_ss.R
0c6fb8970c96ba27ed4da3ccb46d739c *R/susie_trendfilter.R
039d1669992dfe40e83a7a84c4fbbb50 *R/susie_utils.R
da77e89b41857ad08a0248a4599ac567 *R/susie_zzz_auto.R
7f10f37aaaed6dbfe4a473e7ba2f2cc7 *R/trend_filtering_multiplication.R
d909b04c45682cf71d7b4ab483806f23 *R/univariate_regression.R
f80da19037525461aa519e7111bd7430 *R/update_each_effect.R
33b8522a20dfd18abf1826b09ab973b6 *R/update_each_effect_rss.R
88d31baf0f9b67e8b71af983da35eeaf *R/update_each_effect_ss.R
37e0cf9fc9e2de3331609bc4eb4962d2 *README.md
18171e66e57dac2649fcc1425cbbe245 *build/partial.rdb
c3c1ddc7088f61eb6049815ddaa6786b *build/vignette.rds
6f94bc2019fd6794a159a32c0c90ee44 *data/FinemappingConvergence.RData
c6aeb2de428422cc083d9d82cc814f62 *data/N2finemapping.RData
26660c50ea95b7b2d25c492be3eb4e02 *data/N3finemapping.RData
8bda8428d1ec33c6532164061a2418fb *data/SummaryConsistency.RData
4ffe4de2b91dd08c42acd8621707990d *inst/CITATION
055877603aa7eb964c256198acebf53e *inst/analysis/optimize.Rmd
abe7af4381abc51da356118e308f5642 *inst/analysis/test_susie_auto.Rmd
5aaee5b393ac8af120d65092042ab6cb *inst/analysis/testing.Rmd
c734e74dd9fd1bf669701c5aaf747a7c *inst/code/caviar.R
02692f7642b659ea87a0048e70300fdb *inst/code/compute_ss_memory.R
58b5976fa2773a46e2b380aa6fa94f99 *inst/code/dap-g.py
0c68bb7496e0781bdee112427f04fd46 *inst/code/finemap.R
c3030417a7707071de218c9284ed12b8 *inst/code/finemap_1p4.R
c940915206e96508fb8ef34af4142fe3 *inst/code/gen_original_results.R
a028cf38ac54be84c96157305b9defb7 *inst/code/monitor_memory.py
740085e45b6b363a3e6dafa40049217b *inst/code/sparse_matrix_strategy.Rmd
912254064afe7df2d019ac2373e0c146 *inst/code/susie_memory.R
de7972e1caa01efe9ad0f95cb5e59450 *inst/code/susie_rss_memory.R
2eaafa198851004938f32bf2a6817d31 *inst/datafiles/N3finemapping.CAVIAR.RData
270949bf51a2c3fe6069901152d68360 *inst/datafiles/N3finemapping.DAP.RData
0a8062f7f5435e89fcc7f629d0f3a332 *inst/datafiles/N3finemapping.FINEMAP.RData
e04f02280cc36a9f614096908d53084c *inst/doc/finemapping.R
859dc36dcc298d345decafef4163ba35 *inst/doc/finemapping.Rmd
546713f0050378a29ed1b7411e69bc1f *inst/doc/finemapping.html
6e1993f1f4cb1c7dedc6b36275c146f9 *inst/doc/finemapping_summary_statistics.R
f09769c35608fde6b25806bd195e5292 *inst/doc/finemapping_summary_statistics.Rmd
0ea377ea6e7f6e295cbf52381cfa68e8 *inst/doc/finemapping_summary_statistics.html
57611455618bd6180cfc2c23aaf4d286 *inst/doc/l0_initialization.R
5cc4f68e16d9a9b2dadc1d6b1158e0c1 *inst/doc/l0_initialization.Rmd
7cccfe2e4d03e53536d2a8805be9e590 *inst/doc/l0_initialization.html
847f3d38c652363bfefafb6b41dd33b8 *inst/doc/mwe.R
dd4899d3f6c1d8771df2df2ec82e9281 *inst/doc/mwe.Rmd
9464b1bed7760d60ba2c8e94dc0c5b37 *inst/doc/mwe.html
b2479c2657e4c4fb2c9ea8ac2bb54d12 *inst/doc/sparse_susie_eval.R
c207a8c9000f7b33ddfb15902112636b *inst/doc/sparse_susie_eval.Rmd
50e1482a33696bc5045b45a2a1c31c26 *inst/doc/sparse_susie_eval.html
57bd54e20dbf25fa0acc1f67a41d8087 *inst/doc/susie_refine.R
7b6be764908d669ed91bcd44de590c26 *inst/doc/susie_refine.Rmd
9bf74ac916ec0e729c3e87ea5247b4fb *inst/doc/susie_refine.html
c116eea719b555bbb9213bfe809cda77 *inst/doc/susie_rss.R
412c4fc0f7e61f73ba06d28236fb92a9 *inst/doc/susie_rss.Rmd
93a4d7ebf84a88425e41acea97a6c667 *inst/doc/susie_rss.html
ff293083693f24fb842017a7db7640dd *inst/doc/susierss_diagnostic.R
3bad9510852ec1974c93c61c44ca456c *inst/doc/susierss_diagnostic.Rmd
51c0146270e033917502388d3e817629 *inst/doc/susierss_diagnostic.html
953d9aa3295158fbb9af3a269a267313 *inst/doc/susierss_diagnostic2.R
f6843e7ba9577a8944441986dbdaf6ee *inst/doc/trend_filtering.R
e44146ea74e39426234769df27b777da *inst/doc/trend_filtering.Rmd
636a019f91ee445fc6145ee56c1f6cc9 *inst/doc/trend_filtering.html
9798c9e4714beec667ed3e254b146401 *inst/doc/trendfiltering_derivations.Rnw
6ae51372f7f63f5e5883e1203dbc91b5 *inst/doc/trendfiltering_derivations.pdf
5ef7ec32160a728a8e0421664a22884a *inst/misc/post-commit.sh
2db00a6441f8de02698d0a6aede1f6c9 *inst/misc/pre-commit.sh
1720cb8fd23930dc3e7045c9d8e16f1e *man/FinemappingConvergence.Rd
e763f77c72fa6944f1c2bb6bce6ed2b6 *man/N2finemapping.Rd
35b0bb59b9350e897d43c597990ff626 *man/N3finemapping.Rd
02ad26632873d5b7a577c9ed9d04f910 *man/SummaryConsistency.Rd
b85fc88bd1e6f7346601bf954f32d388 *man/coef.susie.Rd
9244037f4de7f2995a8133f6a108e76c *man/compute_ss.Rd
654c21a0db37d1ea582e2bc3ae259d23 *man/compute_suff_stat.Rd
ac4ec144d6f96cbbb64f40c9921b71ee *man/estimate_s_rss.Rd
497da300fa0189f122d5fa25cd7adc7a *man/get_cs_correlation.Rd
f9b3048ea6eb0678dc76dc81b95c0fa7 *man/kriging_rss.Rd
9b76bea17819c05458c65d8357744e0f *man/predict.susie.Rd
df3259511ae91d3f022331a4252e7df0 *man/single_effect_regression.Rd
38fcf364c50e011ab8996b9d495670e6 *man/summary.susie.Rd
1733b05fd11b013f46488a2f980bc765 *man/susie.Rd
159140d01bf2c2adb134f2e4b79dfdd6 *man/susieR-package.Rd
6685782d373ee0516221d0972f5e0e5f *man/susie_auto.Rd
5e0be3024c414a4cbcf288f65903d92c *man/susie_get_methods.Rd
c7ea1c7808d619acd070840f622eae2c *man/susie_init_coef.Rd
2ec9ee36c9eb5edca737de1d42f5ee8a *man/susie_plot_changepoint.Rd
e19b3f6611a4d6d55d211d83f9de8eae *man/susie_plots.Rd
a0f3f1a2362eeead36968f0b6bcc9e33 *man/susie_rss.Rd
75576ac542ebc86504162c114da8b39d *man/susie_trendfilter.Rd
979d2121e527a5bb587e9a6df64e4fdf *man/univariate_regression.Rd
0feb689a4008d1303d5e38f641332584 *tests/README.md
9e57750da8ea08e98bb12218b20dc650 *tests/testthat.R
641aa8e6bbf5a81243c7c25f08f4ebd8 *tests/testthat/ER2_original_res.rds
db86460c48caeb98522a147915ab6d56 *tests/testthat/ER2_rss_lambda0_res.rds
bb4e54e9abf6f40e0cb5ce8ba700380b *tests/testthat/ER2_rss_lambda1_res.rds
ceec7a57ce1ffa3bb0c22b2ce3ad2d13 *tests/testthat/Eloglik_original_res.rds
58f8aba120e11d59a3eca0ae427ac244 *tests/testthat/Eloglik_rss_lambda0_res.rds
156ba213386cd4cfa87e03ccee0dfd6a *tests/testthat/Eloglik_rss_lambda1_res.rds
52f91743306a8660179e4d0ca51ad2e8 *tests/testthat/SER_original_res.rds
57ec0e4dbbf13b7e5fbebc3cc7e82653 *tests/testthat/SER_rss_lambda0_res.rds
376b6e71bcab1844978ddc7a784aaab2 *tests/testthat/SER_rss_lambda1_res.rds
589846a8b3ce89afbc0709dc9eb90d1f *tests/testthat/est_V_debug.rds
0c178c6b6f9023786c8ded44eb5c11db *tests/testthat/helper_testthat.R
e345bb717196a7d27aa5200bec69bd76 *tests/testthat/objective_original_res.rds
266ae5b06d135c242f507d5aa995d32e *tests/testthat/objective_rss_lambda0_res.rds
6d17fda36436dde063f7b6e53f6965e5 *tests/testthat/objective_rss_lambda1_res.rds
f5f2da9ad0b2a1a90e8380fbfb8aea64 *tests/testthat/singleReg_original_res.rds
e36128656466eca93f2c80005d888429 *tests/testthat/singleReg_rss_lambda0_res.rds
0cd6165f3d8ae6388a10526b9be2b023 *tests/testthat/singleReg_rss_lambda1_res.rds
ccb9582205e0480715230135ce6a3455 *tests/testthat/susiefit_original_res.rds
f6b82c192b1c4ff50a1a6c4e3418868e *tests/testthat/susiefit_original_res2.rds
e9ae6aeaa424d458e4c29c2d48ba448d *tests/testthat/susiefit_original_res3.rds
2e7d1f9dd1029e389a2b0e71de0dd5f3 *tests/testthat/susiefit_original_res4.rds
fd0afe6277489e0cbaa2dd2d74adedcc *tests/testthat/susierssfit_lambda0_res.rds
b776e42c6e5fde08590a1af865803f97 *tests/testthat/susierssfit_lambda1_res.rds
57fb271cf938e53ba9a8f7ec1342a567 *tests/testthat/test_Eloglik.R
a001e268d4692558718b83aa58dd7c70 *tests/testthat/test_Eloglik_rss.R
e9e23b1315a03ab3fcc92c62d2c02116 *tests/testthat/test_SER_posterior_e_loglik.R
c0c0e0550017e6f6ccf29c5616ad44d8 *tests/testthat/test_SER_posterior_e_loglik_rss.R
936ba383fad03cb0a1b6be32256ba788 *tests/testthat/test_comput_tf.R
96f99c788755ca3a08da70153036c8ad *tests/testthat/test_est_V.R
055030628a94d4ee6f24ebf3331defc6 *tests/testthat/test_get_ER2.R
23ed62870e2277c8b1241aae0e6757f6 *tests/testthat/test_get_ER2_rss.R
343ce829dd2c36d490d2a107c544f6c2 *tests/testthat/test_get_pip.R
62d886ce47f56c2b0cc4d0b8d34b224a *tests/testthat/test_get_samples.R
39fae35624a0c39385b311b73d28d310 *tests/testthat/test_init.R
89ab77ee6bbeeafd7e569ff1a76fb977 *tests/testthat/test_intercept_standardize.R
e31f3157bcf0b308d6f36ca1aac103f7 *tests/testthat/test_null_weight.R
e6749851eccb88f4de7314bd4158b1ac *tests/testthat/test_prior_weights.R
280c6f97da37f8fd5ddd08c70616e870 *tests/testthat/test_single_effect_regression.R
7ad0a407abae6fc4271dcc63849b3457 *tests/testthat/test_single_effect_regression_rss.R
c4c71d7aac11155b4fed7b71bf785364 *tests/testthat/test_small_resid.R
e283347cf2cd88f25517948438fbd104 *tests/testthat/test_sparse_multiplication.R
4c2b5e312098bd3fcaa900ff22d830d8 *tests/testthat/test_sparse_safe_colScale.R
f4d591cb4aafc25b18c4251f6fb335bf *tests/testthat/test_susie.R
9838a25eeca6a1322309747a388954ea *tests/testthat/test_susie_XtX_Xty.R
1bcb9254bb264225b94e72149d22a52e *tests/testthat/test_susie_beta_se.R
be08170e299942621e228664d0a65b18 *tests/testthat/test_susie_get_cs.R
8a9e21ea28eb17602a67eca3b70581f2 *tests/testthat/test_susie_get_objective.R
c006a98e85dfed1b6322bafd5d3d8ec6 *tests/testthat/test_susie_rss.R
7fbf7a163ae3f7c15dc1ada50c91c8ad *tests/testthat/test_susie_rss_get_objective.R
58a93c1d2d54acc4fa94479f2e846d82 *tests/testthat/test_susie_trendfilter.R
06d7cb90bd297b39e24cd32ce04b8be5 *tests/testthat/test_update_each_effect.R
128466df1e91cc350c912581ec186b3b *tests/testthat/test_update_each_effect_rss.R
e326fce5c8e7db5a5cd7fe44c8cf80e9 *tests/testthat/vbupdate_original_res.rds
5c2587d93a66dd84a32e6453e26062a3 *tests/testthat/vbupdate_rss_lambda0_res.rds
348e39186218130a1dce2068fed80a9e *tests/testthat/vbupdate_rss_lambda1_res.rds
859dc36dcc298d345decafef4163ba35 *vignettes/finemapping.Rmd
f09769c35608fde6b25806bd195e5292 *vignettes/finemapping_summary_statistics.Rmd
5cc4f68e16d9a9b2dadc1d6b1158e0c1 *vignettes/l0_initialization.Rmd
dd4899d3f6c1d8771df2df2ec82e9281 *vignettes/mwe.Rmd
c207a8c9000f7b33ddfb15902112636b *vignettes/sparse_susie_eval.Rmd
7b6be764908d669ed91bcd44de590c26 *vignettes/susie_refine.Rmd
412c4fc0f7e61f73ba06d28236fb92a9 *vignettes/susie_rss.Rmd
3bad9510852ec1974c93c61c44ca456c *vignettes/susierss_diagnostic.Rmd
e44146ea74e39426234769df27b777da *vignettes/trend_filtering.Rmd
9798c9e4714beec667ed3e254b146401 *vignettes/trendfiltering_derivations.Rnw
8c9d761847070677be0c9acbeebf3690 *vignettes/trendfiltering_derivations.bib
