Files in csbl-usp/CEMiTool
Co-expression Modules identification Tool
.Rbuildignore
.gitignore
.travis.yml
CEMiTool.Rproj
DESCRIPTION
NAMESPACE
R/cemitool.R
R/datasets.R
R/diagnostics.R
R/enrichment.R
R/filter.R
R/interactions.R
R/modules.R
R/report.R
R/utils.R
R/visualization.R
README.md
data/cem.rda
data/expr0.rda
data/sample_annot.rda
docker/Dockerfile
docker/Dockerfile.build
docker/example.md
docker/install-deps.R
exec/CEMiTool.R
inst/CITATION
inst/diagnostics/diagnostics.Rmd
inst/extdata/interactions.tsv
inst/extdata/pathways.gmt
inst/report/report.Rmd
man/CEMiTool-class.Rd
man/adj_data.Rd
man/cem.Rd
man/cemitool.Rd
man/diagnostic_report.Rd
man/expr0.Rd
man/expr_data.Rd
man/expr_pct_filter.Rd
man/filter_expr.Rd
man/find_modules.Rd
man/fit_data.Rd
man/generate_report.Rd
man/get_adj.Rd
man/get_beta_data.Rd
man/get_cemitool_r2_beta.Rd
man/get_connectivity.Rd
man/get_hubs.Rd
man/get_merged_mods.Rd
man/get_mods.Rd
man/get_phi.Rd
man/gsea_data.Rd
man/interactions_data.Rd
man/mod_colors.Rd
man/mod_gene_num.Rd
man/mod_gsea.Rd
man/mod_names.Rd
man/mod_ora.Rd
man/mod_summary.Rd
man/module_genes.Rd
man/module_to_gmt.Rd
man/new_cem.Rd
man/nmodules.Rd
man/ora_data.Rd
man/plot_beta_r2.Rd
man/plot_gsea.Rd
man/plot_hist.Rd
man/plot_interactions.Rd
man/plot_mean_k.Rd
man/plot_mean_var.Rd
man/plot_ora.Rd
man/plot_ora_single.Rd
man/plot_profile.Rd
man/plot_qq.Rd
man/plot_sample_tree.Rd
man/read_gmt.Rd
man/sample_annot.Rd
man/sample_annotation.Rd
man/save_plots.Rd
man/select_genes.Rd
man/show-CEMiTool-method.Rd
man/show_plot.Rd
man/vst.Rd
man/write_files.Rd
tests/testthat.R
tests/testthat/test-adj_data.R
tests/testthat/test-cemitool.R
tests/testthat/test-diagnostic_plots.R
tests/testthat/test-expr_data.R
tests/testthat/test-filter_select.R
tests/testthat/test-find_modules.R
tests/testthat/test-generate_report.R
tests/testthat/test-get_adj.R
tests/testthat/test-get_hubs.R
tests/testthat/test-interactions_data.R
tests/testthat/test-mod_colors.R
tests/testthat/test-mod_gene_num.R
tests/testthat/test-mod_gsea.R
tests/testthat/test-mod_names.R
tests/testthat/test-mod_ora.R
tests/testthat/test-mod_summary.R
tests/testthat/test-new_cem.R
tests/testthat/test-nmodules.R
tests/testthat/test-plot_beta_r2.R
tests/testthat/test-plot_gsea.R
tests/testthat/test-plot_interactions.R
tests/testthat/test-plot_mean_k.R
tests/testthat/test-plot_ora.R
tests/testthat/test-plot_profile.R
tests/testthat/test-sample_annotation.R
vignettes/CEMiTool.Rmd
