Files in CEMiTool

Co-expression Modules identification Tool

README.md

NAMESPACE

DESCRIPTION

R/visualization.R R/datasets.R R/enrichment.R R/report.R R/modules.R R/diagnostics.R R/interactions.R R/filter.R R/cemitool.R R/utils.R

inst/CITATION

inst/doc/CEMiTool.Rmd

inst/doc/CEMiTool.html

inst/doc/CEMiTool.R

inst/extdata/pathways.gmt

inst/extdata/interactions.tsv

inst/report/report.Rmd inst/diagnostics/diagnostics.Rmd

build/vignette.rds

tests/testthat.R tests/testthat/test-sample_annotation.R tests/testthat/test-plot_gsea.R tests/testthat/test-plot_mean_k.R tests/testthat/test-mod_colors.R tests/testthat/test-filter_select.R tests/testthat/test-plot_ora.R tests/testthat/test-plot_interactions.R tests/testthat/test-mod_gene_num.R tests/testthat/test-find_modules.R tests/testthat/test-interactions_data.R tests/testthat/test-nmodules.R tests/testthat/test-expr_data.R tests/testthat/test-new_cem.R tests/testthat/test-mod_summary.R tests/testthat/test-get_hubs.R tests/testthat/test-adj_data.R tests/testthat/test-plot_profile.R tests/testthat/test-generate_report.R tests/testthat/test-mod_ora.R tests/testthat/test-diagnostic_plots.R tests/testthat/test-mod_gsea.R tests/testthat/test-mod_names.R tests/testthat/test-get_adj.R tests/testthat/test-cemitool.R tests/testthat/test-plot_beta_r2.R vignettes/CEMiTool.Rmd

data/expr0.rda

data/sample_annot.rda

data/cem.rda

exec/CEMiTool.R man/select_genes.Rd man/get_cemitool_r2_beta.Rd man/find_modules.Rd man/mod_summary.Rd man/mod_ora.Rd man/gsea_data.Rd man/plot_beta_r2.Rd man/get_connectivity.Rd man/expr0.Rd man/expr_data.Rd man/module_genes.Rd man/sample_annotation.Rd man/show_plot.Rd man/plot_mean_k.Rd man/cemitool.Rd man/expr_pct_filter.Rd man/mod_colors.Rd man/mod_gene_num.Rd man/get_adj.Rd man/plot_qq.Rd man/get_hubs.Rd man/plot_profile.Rd man/plot_interactions.Rd man/show-CEMiTool-method.Rd man/sample_annot.Rd man/generate_report.Rd man/filter_expr.Rd man/new_cem.Rd man/plot_mean_var.Rd man/cem.Rd man/plot_gsea.Rd man/interactions_data.Rd man/diagnostic_report.Rd man/save_plots.Rd man/read_gmt.Rd man/get_phi.Rd man/fit_data.Rd man/get_mods.Rd man/get_beta_data.Rd man/ora_data.Rd man/mod_names.Rd man/vst.Rd man/plot_ora_single.Rd man/nmodules.Rd man/plot_hist.Rd man/plot_ora.Rd man/write_files.Rd man/get_merged_mods.Rd man/plot_sample_tree.Rd man/CEMiTool-class.Rd man/adj_data.Rd man/module_to_gmt.Rd man/mod_gsea.Rd

CEMiTool documentation built on March 13, 2021, 2 a.m.