Merge helpers

MaayanLab · Mar 19, 2016 · d9ae7e9 · d9ae7e9
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diff --git a/.gitignore → helpers/.gitignore b/.gitignore → helpers/.gitignore
diff --git a/DESCRIPTION → helpers/DESCRIPTION b/DESCRIPTION → helpers/DESCRIPTION
diff --git a/LICENSE → helpers/LICENSE b/LICENSE → helpers/LICENSE
diff --git a/NAMESPACE → helpers/NAMESPACE b/NAMESPACE → helpers/NAMESPACE
diff --git a/R/chdir.R → helpers/R/chdir.R b/R/chdir.R → helpers/R/chdir.R
diff --git a/R/datain.R → helpers/R/datain.R b/R/datain.R → helpers/R/datain.R
diff --git a/R/geode_utils.R → helpers/R/geode_utils.R b/R/geode_utils.R → helpers/R/geode_utils.R
diff --git a/R/misc.R → helpers/R/misc.R b/R/misc.R → helpers/R/misc.R
diff --git a/R/paea.R → helpers/R/paea.R b/R/paea.R → helpers/R/paea.R
diff --git a/R/preprocess.R → helpers/R/preprocess.R b/R/preprocess.R → helpers/R/preprocess.R
diff --git a/R/shiny_utils.R → helpers/R/shiny_utils.R b/R/shiny_utils.R → helpers/R/shiny_utils.R
diff --git a/R/stats.R → helpers/R/stats.R b/R/stats.R → helpers/R/stats.R
diff --git a/R/sysdata.rda → helpers/R/sysdata.rda b/R/sysdata.rda → helpers/R/sysdata.rda
diff --git a/README.md → helpers/README.md b/README.md → helpers/README.md
diff --git a/man/chdir_analysis_wrapper.Rd → helpers/man/chdir_analysis_wrapper.Rd b/man/chdir_analysis_wrapper.Rd → helpers/man/chdir_analysis_wrapper.Rd
diff --git a/man/chdir_props.Rd → helpers/man/chdir_props.Rd b/man/chdir_props.Rd → helpers/man/chdir_props.Rd
diff --git a/man/chdir_results.Rd → helpers/man/chdir_results.Rd b/man/chdir_results.Rd → helpers/man/chdir_results.Rd
diff --git a/man/choose_unique_submissions.Rd → helpers/man/choose_unique_submissions.Rd b/man/choose_unique_submissions.Rd → helpers/man/choose_unique_submissions.Rd
diff --git a/man/combine_results.Rd → helpers/man/combine_results.Rd b/man/combine_results.Rd → helpers/man/combine_results.Rd
diff --git a/man/datain_filter.Rd → helpers/man/datain_filter.Rd b/man/datain_filter.Rd → helpers/man/datain_filter.Rd
diff --git a/man/datain_is_valid.Rd → helpers/man/datain_is_valid.Rd b/man/datain_is_valid.Rd → helpers/man/datain_is_valid.Rd
diff --git a/man/datain_log2_transform.Rd → helpers/man/datain_log2_transform.Rd b/man/datain_log2_transform.Rd → helpers/man/datain_log2_transform.Rd
diff --git a/man/datain_preprocess.Rd → helpers/man/datain_preprocess.Rd b/man/datain_preprocess.Rd → helpers/man/datain_preprocess.Rd
diff --git a/man/datain_quantile_normalize.Rd → helpers/man/datain_quantile_normalize.Rd b/man/datain_quantile_normalize.Rd → helpers/man/datain_quantile_normalize.Rd
diff --git a/man/disabledActionButton.Rd → helpers/man/disabledActionButton.Rd b/man/disabledActionButton.Rd → helpers/man/disabledActionButton.Rd
diff --git a/man/disabledNumericInput.Rd → helpers/man/disabledNumericInput.Rd b/man/disabledNumericInput.Rd → helpers/man/disabledNumericInput.Rd
diff --git a/man/download_data.Rd → helpers/man/download_data.Rd b/man/download_data.Rd → helpers/man/download_data.Rd
diff --git a/man/extract_description.Rd → helpers/man/extract_description.Rd b/man/extract_description.Rd → helpers/man/extract_description.Rd
diff --git a/man/extract_genes.Rd → helpers/man/extract_genes.Rd b/man/extract_genes.Rd → helpers/man/extract_genes.Rd
diff --git a/man/extract_samples.Rd → helpers/man/extract_samples.Rd b/man/extract_samples.Rd → helpers/man/extract_samples.Rd
diff --git a/man/genes_coverage.Rd → helpers/man/genes_coverage.Rd b/man/genes_coverage.Rd → helpers/man/genes_coverage.Rd
diff --git a/man/get_path.Rd → helpers/man/get_path.Rd b/man/get_path.Rd → helpers/man/get_path.Rd
diff --git a/man/list_to_defs.Rd → helpers/man/list_to_defs.Rd b/man/list_to_defs.Rd → helpers/man/list_to_defs.Rd
diff --git a/man/paea_analysis_dispatch.Rd → helpers/man/paea_analysis_dispatch.Rd b/man/paea_analysis_dispatch.Rd → helpers/man/paea_analysis_dispatch.Rd
diff --git a/man/paea_analysis_wrapper.Rd → helpers/man/paea_analysis_wrapper.Rd b/man/paea_analysis_wrapper.Rd → helpers/man/paea_analysis_wrapper.Rd
diff --git a/man/paea_to_df.Rd → helpers/man/paea_to_df.Rd b/man/paea_to_df.Rd → helpers/man/paea_to_df.Rd
diff --git a/man/plot_density.Rd → helpers/man/plot_density.Rd b/man/plot_density.Rd → helpers/man/plot_density.Rd
diff --git a/man/plot_top_genes.Rd → helpers/man/plot_top_genes.Rd b/man/plot_top_genes.Rd → helpers/man/plot_top_genes.Rd
diff --git a/man/prepare_density_plot_input.Rd → helpers/man/prepare_density_plot_input.Rd b/man/prepare_density_plot_input.Rd → helpers/man/prepare_density_plot_input.Rd
diff --git a/man/prepare_down_genes.Rd → helpers/man/prepare_down_genes.Rd b/man/prepare_down_genes.Rd → helpers/man/prepare_down_genes.Rd
diff --git a/man/prepare_enrichr_input.Rd → helpers/man/prepare_enrichr_input.Rd b/man/prepare_enrichr_input.Rd → helpers/man/prepare_enrichr_input.Rd
diff --git a/man/prepare_gene_sets.Rd → helpers/man/prepare_gene_sets.Rd b/man/prepare_gene_sets.Rd → helpers/man/prepare_gene_sets.Rd
diff --git a/man/prepare_paea_results.Rd → helpers/man/prepare_paea_results.Rd b/man/prepare_paea_results.Rd → helpers/man/prepare_paea_results.Rd
diff --git a/man/prepare_results.Rd → helpers/man/prepare_results.Rd b/man/prepare_results.Rd → helpers/man/prepare_results.Rd
diff --git a/man/prepare_up_genes.Rd → helpers/man/prepare_up_genes.Rd b/man/prepare_up_genes.Rd → helpers/man/prepare_up_genes.Rd
diff --git a/man/preprocess.Rd → helpers/man/preprocess.Rd b/man/preprocess.Rd → helpers/man/preprocess.Rd
diff --git a/man/preprocess_chdir_input.Rd → helpers/man/preprocess_chdir_input.Rd b/man/preprocess_chdir_input.Rd → helpers/man/preprocess_chdir_input.Rd
diff --git a/man/preprocess_data.Rd → helpers/man/preprocess_data.Rd b/man/preprocess_data.Rd → helpers/man/preprocess_data.Rd
diff --git a/man/shiny_error_handler.Rd → helpers/man/shiny_error_handler.Rd b/man/shiny_error_handler.Rd → helpers/man/shiny_error_handler.Rd
diff --git a/man/shiny_list_to_li.Rd → helpers/man/shiny_list_to_li.Rd b/man/shiny_list_to_li.Rd → helpers/man/shiny_list_to_li.Rd
diff --git a/man/shiny_static_navbar.Rd → helpers/man/shiny_static_navbar.Rd b/man/shiny_static_navbar.Rd → helpers/man/shiny_static_navbar.Rd
diff --git a/man/split_chdirresults.Rd → helpers/man/split_chdirresults.Rd b/man/split_chdirresults.Rd → helpers/man/split_chdirresults.Rd
diff --git a/man/split_gmtfile.Rd → helpers/man/split_gmtfile.Rd b/man/split_gmtfile.Rd → helpers/man/split_gmtfile.Rd
diff --git a/man/submissions_per_cell_type.Rd → helpers/man/submissions_per_cell_type.Rd b/man/submissions_per_cell_type.Rd → helpers/man/submissions_per_cell_type.Rd
diff --git a/man/submissions_per_organism.Rd → helpers/man/submissions_per_organism.Rd b/man/submissions_per_organism.Rd → helpers/man/submissions_per_organism.Rd
diff --git a/man/submissions_per_user.Rd → helpers/man/submissions_per_user.Rd b/man/submissions_per_user.Rd → helpers/man/submissions_per_user.Rd
diff --git a/tests/testthat.R → helpers/tests/testthat.R b/tests/testthat.R → helpers/tests/testthat.R
diff --git a/tests/testthat/.gitignore → helpers/tests/testthat/.gitignore b/tests/testthat/.gitignore → helpers/tests/testthat/.gitignore
diff --git a/tests/testthat/test_chdir.R → helpers/tests/testthat/test_chdir.R b/tests/testthat/test_chdir.R → helpers/tests/testthat/test_chdir.R
diff --git a/tests/testthat/test_datain.R → helpers/tests/testthat/test_datain.R b/tests/testthat/test_datain.R → helpers/tests/testthat/test_datain.R
diff --git a/tests/testthat/test_geode_utils.R → helpers/tests/testthat/test_geode_utils.R b/tests/testthat/test_geode_utils.R → helpers/tests/testthat/test_geode_utils.R
diff --git a/tests/testthat/test_misc.R → helpers/tests/testthat/test_misc.R b/tests/testthat/test_misc.R → helpers/tests/testthat/test_misc.R
diff --git a/tests/testthat/test_paea.R → helpers/tests/testthat/test_paea.R b/tests/testthat/test_paea.R → helpers/tests/testthat/test_paea.R
diff --git a/tests/testthat/test_preprocess.R → helpers/tests/testthat/test_preprocess.R b/tests/testthat/test_preprocess.R → helpers/tests/testthat/test_preprocess.R
diff --git a/tests/testthat/test_stats.R → helpers/tests/testthat/test_stats.R b/tests/testthat/test_stats.R → helpers/tests/testthat/test_stats.R