Files in EGAD

Extending guilt by association by degree

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

data/GO.voc.RData

data/GO.mouse.RData

data/ortho.RData

data/example_annotations.RData

data/pheno.RData

data/datalist

data/attr.human.RData

data/GO.human.RData

data/attr.mouse.RData

data/example_neighbor_voting.RData

data/biogrid.RData

data/genes.RData

data/example_binary_network.RData

data/example_coexpression.RData

R/get_density.R R/auc_multifunc.R R/build_semantic_similarity_network.R R/plot_density_compare.R R/plot_network_heatmap.R R/get_phenocarta.R R/make_genelist.R R/GO.human.R R/get_expression_matrix_from_GEO.R R/get_biogrid.R R/extend_network.R R/example_neighbor_voting.R R/get_auc.R R/auroc_analytic.R R/repmat.R R/ortho.R R/neighbor_voting.R R/example_annotations.R R/pheno.R R/filter_network.R R/example_coexpression.R R/filter_network_cols.R R/calculate_multifunc.R R/node_degree.R R/plot_densities.R R/get_roc.R R/plot_prc.R R/build_weighted_network.R R/attr.mouse.R R/plot_roc_overlay.R R/get_expression_data_gemma.R R/GO.mouse.R R/build_binary_network.R R/genes.R R/GO.voc.R R/conv_smoother.R R/plot_distribution.R R/fmeasure.R R/filter_orthologs.R R/get_prc.R R/get_counts.R R/example_binary_network.R R/plot_value_compare.R R/run_GBA.R R/plot_roc.R R/filter_network_rows.R R/attr.human.R R/predictions.R R/assortativity.R R/build_coexp_network.R R/build_coexp_expressionSet.R R/biogrid.R R/make_gene_network.R R/make_annotations.R R/make_transparent.R R/auprc.R R/build_coexp_GEOID.R

matlab/prec_rec.m

matlab/voter.m

matlab/opt_ROC_scores.m

matlab/voter_ROC.m

vignettes/EGAD.Rmd

vignettes/EGAD.bib

vignettes/figures/figure_pheno_mf.png

vignettes/figures/overview_resized.png

vignettes/figures/figure_aurocs_comparisons.png

vignettes/figures/figure_pheno_nv.png

vignettes/figures/figure_mf.png

vignettes/figures/figure_nv_yeast_human.png

vignettes/figures/figure_pheno_degree_corr.png

vignettes/figures/figure_pheno_comb.png

vignettes/figures/figure_degree_corr.png

vignettes/figures/figure_mf_yeast_human.png

vignettes/figures/figure_indirect.png

vignettes/figures/figure_overlay.png

vignettes/figures/figure_smoother.png

vignettes/figures/labels_resized.png

vignettes/figures/figure_nv.png

vignettes/figures/figure_nd_yeast_human.png

vignettes/figures/network_resized.png

vignettes/figures/gba_schematic_resized.png

vignettes/figures/figure_GO_comb.png

vignettes/figures/mf_schematic.png

vignettes/figures/figure_benchmark.png

man/make_genelist.Rd man/conv_smoother.Rd man/build_weighted_network.Rd man/plot_roc_overlay.Rd man/make_transparent.Rd man/example_binary_network.Rd man/GO.human.Rd man/filter_network_rows.Rd man/build_coexp_network.Rd man/make_gene_network.Rd man/predictions.Rd man/get_phenocarta.Rd man/build_binary_network.Rd man/GO.voc.Rd man/plot_distribution.Rd man/plot_roc.Rd man/extend_network.Rd man/build_coexp_expressionSet.Rd man/plot_network_heatmap.Rd man/get_biogrid.Rd man/make_annotations.Rd man/auprc.Rd man/filter_network_cols.Rd man/plot_prc.Rd man/get_prc.Rd man/assortativity.Rd man/plot_value_compare.Rd man/node_degree.Rd man/filter_orthologs.Rd man/auroc_analytic.Rd man/attr.mouse.Rd man/plot_density_compare.Rd man/genes.Rd man/example_neighbor_voting.Rd man/repmat.Rd man/plot_densities.Rd man/run_GBA.Rd man/example_annotations.Rd man/get_counts.Rd man/get_auc.Rd man/auc_multifunc.Rd man/get_expression_data_gemma.Rd man/example_coexpression.Rd man/biogrid.Rd man/get_roc.Rd man/pheno.Rd man/build_semantic_similarity_network.Rd man/GO.mouse.Rd man/ortho.Rd man/calculate_multifunc.Rd man/build_coexp_GEOID.Rd man/neighbor_voting.Rd man/get_expression_matrix_from_GEO.Rd man/filter_network.Rd man/get_density.Rd man/atrr.human.Rd man/fmeasure.Rd tests/testthat.R tests/testthat/test.nv.r tests/testthat/test.auroc.r tests/testthat/test.mf.r tests/testthat/test.network.r

inst/NEWS

inst/CITATION

inst/doc/EGAD.Rmd inst/doc/EGAD.R

inst/doc/EGAD.html

inst/matlab/prec_rec.m

inst/matlab/voter.m

inst/matlab/opt_ROC_scores.m

inst/matlab/voter_ROC.m

EGAD documentation built on Nov. 8, 2020, 8:31 p.m.