Files in almeidasilvaf/BioNERO
Biological Network Reconstruction Omnibus
.Rbuildignore
.github/.gitignore
.github/workflows/check-bioc.yml
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/BioNERO-package.R
R/consensus_modules.R
R/data.R
R/data_preprocess.R
R/evolutionary_analysis.R
R/exploratory_analysis.R
R/gcn_inference.R
R/grn_inference.R
R/network_comparison.R
R/network_stats.R
R/network_visualization.R
R/utils.R
README.Rmd
README.md
codecov.yml
data/filt.se.rda
data/og.zma.osa.rda
data/osa.se.rda
data/zma.interpro.rda
data/zma.se.rda
data/zma.tfs.rda
inst/CITATION
inst/_pkgdown.yml
inst/extdata/Orthogroups.tsv
inst/script/README.md
man/BioNERO-package.Rd
man/PC_correction.Rd
man/SFT_fit.Rd
man/ZKfiltering.Rd
man/check_SFT.Rd
man/consensus_SFT_fit.Rd
man/consensus_modules.Rd
man/consensus_trait_cor.Rd
man/cor2adj.Rd
man/cormat_to_edgelist.Rd
man/detect_communities.Rd
man/dfs2one.Rd
man/enrichment_analysis.Rd
man/exp2cor.Rd
man/exp2gcn.Rd
man/exp2gcn_blockwise.Rd
man/exp2grn.Rd
man/exp_genes2orthogroups.Rd
man/exp_preprocess.Rd
man/figures/logo.png
man/filt.se.Rd
man/filter_by_variance.Rd
man/gene_significance.Rd
man/get_HK.Rd
man/get_edge_list.Rd
man/get_hubs_gcn.Rd
man/get_hubs_grn.Rd
man/get_neighbors.Rd
man/grn_average_rank.Rd
man/grn_combined.Rd
man/grn_filter.Rd
man/grn_infer.Rd
man/is_singleton.Rd
man/modPres_WGCNA.Rd
man/modPres_netrep.Rd
man/module_enrichment.Rd
man/module_preservation.Rd
man/module_stability.Rd
man/module_trait_cor.Rd
man/net_stats.Rd
man/og.zma.osa.Rd
man/osa.se.Rd
man/parse_orthofinder.Rd
man/plot_PCA.Rd
man/plot_dendro_and_colors.Rd
man/plot_eigengene_network.Rd
man/plot_expression_profile.Rd
man/plot_gcn.Rd
man/plot_gene_significance.Rd
man/plot_grn.Rd
man/plot_heatmap.Rd
man/plot_module_trait_cor.Rd
man/plot_ngenes_per_module.Rd
man/plot_ppi.Rd
man/q_normalize.Rd
man/remove_nonexp.Rd
man/replace_na.Rd
man/zma.interpro.Rd
man/zma.se.Rd
man/zma.tfs.Rd
tests/testthat.R
tests/testthat/test_comparison.R
tests/testthat/test_consensusmodules.R
tests/testthat/test_data_preprocess.R
tests/testthat/test_evolutionary.R
tests/testthat/test_exploratory_analyses.R
tests/testthat/test_gcn.R
tests/testthat/test_grn.R
tests/testthat/test_stats.R
tests/testthat/test_utils.R
tests/testthat/test_visualization.R
vignettes/vignette1.bib
vignettes/vignette2.bib
vignettes/vignette3.bib
vignettes/vignette_01_GCN_inference.Rmd
vignettes/vignette_02_GRN_inference.Rmd
vignettes/vignette_03_network_comparison.Rmd
