Files in ggpicrust2
Make 'PICRUSt2' Output Analysis and Visualization Easier
MD5
NEWS.md
README.md
NAMESPACE
DESCRIPTION
LICENSE
R/pathway_daa.R
R/visualize_gsea.R
R/compare_gsea_daa.R
R/pathway_volcano.R
R/daa_results_df.R
R/pathway_heatmap.R
R/ko2kegg_abundance.R
R/compare_metagenome_results.R
R/pathway_gsea.R
R/color_themes.R
R/legend_annotation_utils.R
R/ko_abundance.R
R/compare_daa_results.R
R/pathway_errorbar_table.R
R/taxa_contribution.R
R/metacyc_abundance.R
R/pathway_ridgeplot.R
R/pathway_annotation.R
R/pathway_pca.R
R/data_documentation.R
R/kegg_abundance.R
R/data_utils.R
R/pathway_errorbar.R
R/zzz.R
R/metadata.R
R/ggpicrust2.R
R/gsea_pathway_annotation.R
R/daa_annotated_results_df.R
R/import_MicrobiomeAnalyst_daa_results.R
R/taxa_contribution_viz.R
inst/citation
inst/doc/gsea_analysis.Rmd
inst/doc/using_ggpicrust2.Rmd
inst/doc/using_ggpicrust2.R
inst/doc/using_ggpicrust2.html
inst/doc/gsea_analysis.R
inst/doc/gsea_analysis.html
inst/extdata/images/logo.png
build/vignette.rds
tests/testthat.R
tests/testthat/test-visualize_gsea.R
tests/testthat/test-pathway_volcano.R
tests/testthat/helper-gsea.R
tests/testthat/test-pathway_daa.R
tests/testthat/test-ko2kegg_abundance.R
tests/testthat/test-pathway_errorbar.R
tests/testthat/test-reference_data_structure.R
tests/testthat/test-pathway_annotation.R
tests/testthat/test-pathway_ridgeplot.R
tests/testthat/test-pathway_pca.R
tests/testthat/test-ggpicrust2-return-structure.R
tests/testthat/test-go_pathway_support.R
tests/testthat/test-taxa_contribution.R
tests/testthat/test-pathway_gsea.R
tests/testthat/test-gsea_pathway_annotation.R
tests/testthat/test-pathway_heatmap.R
vignettes/gsea_analysis.Rmd
vignettes/using_ggpicrust2.Rmd
data/kegg_abundance.rda
data/ko_to_go_reference.rda
data/metadata.rda
data/ko_reference.rda
data/metacyc_abundance.rda
data/kegg_pathway_reference.rda
data/daa_annotated_results_df.rda
data/daa_results_df.rda
data/ec_reference.rda
data/ko_to_kegg_reference.rda
data/metacyc_reference.rda
data/ko_abundance.rda
data/metacyc_to_ec_reference.rda
man/pathway_gsea.Rd
man/ggpicrust2.Rd
man/dot-build_continuous_scale.Rd
man/daa_results_df.Rd
man/get_color_theme.Rd
man/legend_annotation_utils.Rd
man/compare_daa_results.Rd
man/metacyc_to_ec_reference.Rd
man/ec_reference.Rd
man/create_legend_theme.Rd
man/preview_color_theme.Rd
man/data_utils.Rd
man/taxa_contribution_bar.Rd
man/require_column.Rd
man/create_heatmap_plot.Rd
man/resolve_annotation_overlaps.Rd
man/run_limma_gsea.Rd
man/pathway_errorbar.Rd
man/pathway_errorbar_table.Rd
man/ko_abundance.Rd
man/validate_group_sizes.Rd
man/create_pathway_class_theme.Rd
man/visualize_gsea.Rd
man/metacyc_reference.Rd
man/compare_metagenome_results.Rd
man/get_available_themes.Rd
man/dot-as_color_vector.Rd
man/compare_gsea_daa.Rd
man/prepare_gene_sets.Rd
man/ko_to_kegg_reference.Rd
man/safe_extract.Rd
man/gsea_pathway_annotation.Rd
man/metadata.Rd
man/create_gradient_colors.Rd
man/smart_color_selection.Rd
man/pathway_volcano.Rd
man/pathway_ridgeplot.Rd
man/get_significance_stars.Rd
man/validate_daa_results.Rd
man/calculate_abundance_stats.Rd
man/calculate_log2_fold_change.Rd
man/pathway_heatmap.Rd
man/taxa_contribution_heatmap.Rd
man/pathway_daa.Rd
man/create_dendrogram.Rd
man/create_network_plot.Rd
man/read_strat_file.Rd
man/get_significance_colors.Rd
man/format_pvalue_smart.Rd
man/ko2kegg_abundance.Rd
man/pathway_annotation.Rd
man/dot-is_ggplot_scale.Rd
man/pathway_pca.Rd
man/kegg_abundance.Rd
man/ko_to_go_reference.Rd
man/ko_reference.Rd
man/import_MicrobiomeAnalyst_daa_results.Rd
man/calculate_rank_metric.Rd
man/dot-build_heatmap_col_fun.Rd
man/build_design_matrix.Rd
man/read_contrib_file.Rd
man/calculate_smart_text_size.Rd
man/color_themes.Rd
man/daa_annotated_results_df.Rd
man/create_empty_plot.Rd
man/generate_nested_colors.Rd
man/run_fgsea.Rd
man/calculate_pseudocount.Rd
man/kegg_pathway_reference.Rd
man/dot-build_discrete_fill_for_direction.Rd
man/aggregate_taxa_contributions.Rd
man/metacyc_abundance.Rd
man/figures/README-unnamed-chunk-3-1.png
man/figures/logo.png
man/figures/README-unnamed-chunk-5-1.png
