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Last updated: 2022-04-06

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Knit directory: logistic-susie-gsea/

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Repository version: 8944883

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Ignored files:
    Ignored:    .DS_Store
    Ignored:    .RData
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/
    Ignored:    library/
    Ignored:    renv/library/
    Ignored:    renv/staging/
    Ignored:    staging/

Untracked files:
    Untracked:  _targets.R
    Untracked:  _targets.html
    Untracked:  _targets.md
    Untracked:  _targets/
    Untracked:  _targets_r/
    Untracked:  analysis/deng_example.Rmd
    Untracked:  analysis/fetal_reference_cellid_gsea.Rmd
    Untracked:  analysis/fixed_intercept.Rmd
    Untracked:  analysis/iDEA_examples.Rmd
    Untracked:  analysis/latent_gene_list.Rmd
    Untracked:  analysis/latent_logistic_susie.Rmd
    Untracked:  analysis/libra_setup.Rmd
    Untracked:  analysis/linear_method_failure_modes.Rmd
    Untracked:  analysis/linear_regression_failure_regime.Rmd
    Untracked:  analysis/logistic_susie_veb_boost_vs_vb.Rmd
    Untracked:  analysis/logistic_susie_vis.Rmd
    Untracked:  analysis/references.bib
    Untracked:  analysis/simulations.Rmd
    Untracked:  analysis/single_cell_pbmc_l1.Rmd
    Untracked:  analysis/test.Rmd
    Untracked:  analysis/wenhe_baboon_example.Rmd
    Untracked:  baboon_diet_cache/
    Untracked:  build_site.R
    Untracked:  cache/
    Untracked:  code/latent_logistic_susie.R
    Untracked:  code/logistic_susie_data_driver.R
    Untracked:  code/marginal_sumstat_gsea_collapsed.R
    Untracked:  data/adipose_2yr_topsnp.txt
    Untracked:  data/deng/
    Untracked:  data/fetal_reference_cellid_gene_sets.RData
    Untracked:  data/pbmc-purified/
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    Untracked:  docs.zip
    Untracked:  index.md
    Untracked:  latent_logistic_susie_cache/
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Unstaged changes:
    Modified:   _simulation_targets.R
    Modified:   _targets.Rmd
    Modified:   analysis/baboon_diet.Rmd
    Modified:   analysis/gseabenchmark_tcga.Rmd
    Deleted:    analysis/summary_stat_gsea_univariate_simulations.Rmd
    Modified:   code/fit_baselines.R
    Modified:   code/fit_logistic_susie.R
    Modified:   code/fit_mr_ash.R
    Modified:   code/fit_susie.R
    Modified:   code/load_gene_sets.R
    Modified:   code/simulate_gene_lists.R
    Modified:   code/utils.R
    Modified:   target_components/factories.R
    Modified:   target_components/methods.R

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File	Version	Author	Date	Message
Rmd	8944883	karltayeb	2022-04-06	wflow_publish(c(“analysis/index.Rmd”, “analysis/summary_stat_gsea_sim.Rmd”))
html	5a3ea2c	karltayeb	2022-03-30	Build site.
Rmd	57400f2	karltayeb	2022-03-30	wflow_publish(“analysis/index.Rmd”)
html	89a22cc	karltayeb	2022-03-30	Build site.
Rmd	c0de312	karltayeb	2022-03-30	wflow_publish(“analysis/index.Rmd”)
html	49bdf37	karltayeb	2022-03-30	Build site.
Rmd	a094110	karltayeb	2022-03-30	wflow_publish(“analysis/index.Rmd”)
html	26e6c28	karltayeb	2022-03-30	Build site.
Rmd	11ff3a3	karltayeb	2022-03-30	wflow_publish(pages)
html	56f8130	karltayeb	2022-03-29	Build site.
html	a2bdb56	karltayeb	2022-03-29	Build site.
Rmd	122deec	karltayeb	2022-03-29	wflow_publish(pages)
html	cfb37bf	karltayeb	2022-03-28	Build site.
Rmd	b3eb238	karltayeb	2022-03-28	wflow_publish(“analysis/index.Rmd”)
Rmd	a6b440e	karltayeb	2022-01-10	targets with l1 sim
Rmd	97a97db	Karl Tayeb	2022-01-05	Start workflowr project.

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Logistic SuSiE GSEA examples

GSEA from summary statistics