Files in animalcules

Interactive microbiome analysis toolkit

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

R/find_taxonomy_300.R R/diversity_beta_boxplot.R R/filter_summary_pie_box.R R/find_biomarker.R R/filter_categorize.R R/relabu_boxplot.R R/do_alpha_div_test.R R/simpson_index.R R/alpha_div_boxplot.R R/find_taxonomy.R R/utils.R R/runApp.R R/diversity_beta_test.R R/dimred_pca.R R/read_pathoscope_data.R R/shannon.R R/filter_summary_bar_density.R R/relabu_barplot.R R/diversities_help.R R/write_to_biom.R R/gini_simpson.R R/diversity_beta_heatmap.R R/dimred_pcoa.R R/alpha_div_test.R R/animalcules-package.R R/grep_tid.R R/find_taxon_mat.R R/relabu_heatmap.R R/differential_abundance.R R/dimred_umap.R R/diversities.R R/dimred_tsne.R R/inverse_simpson.R vignettes/animalcules.Rmd man/mae_pick_organisms.Rd man/filter_summary_pie_box.Rd man/find_taxonomy.Rd man/grep_tid.Rd man/is_integer1.Rd man/find_taxonomy_300.Rd man/run_animalcules.Rd man/counts_to_logcpm.Rd man/is_integer0.Rd man/inverse_simpson.Rd man/diversity_beta_heatmap.Rd man/shannon.Rd man/find_biomarker.Rd man/read_pathoscope_data.Rd man/dimred_tsne.Rd man/mae_pick_samples.Rd man/relabu_heatmap.Rd man/upsample_counts.Rd man/diversity_beta_boxplot.Rd man/dimred_pca.Rd man/is_categorical.Rd man/pct2str.Rd man/animalcules-package.Rd man/differential_abundance.Rd man/find_taxon_mat.Rd man/diversity_beta_test.Rd man/do_alpha_div_test.Rd man/diversities.Rd man/counts_to_relabu.Rd man/diversities_help.Rd man/write_to_biom.Rd man/df_char_to_factor.Rd man/filter_summary_bar_density.Rd man/filter_categorize.Rd man/dimred_umap.Rd man/percent.Rd man/dimred_pcoa.Rd man/alpha_div_boxplot.Rd man/relabu_boxplot.Rd man/relabu_barplot.Rd man/gini_simpson.Rd man/simpson_index.Rd man/alpha_div_test.Rd tests/testthat.R tests/testthat/test-examples.R

inst/doc/animalcules.html

inst/doc/animalcules.R inst/doc/animalcules.Rmd inst/shiny/app.R inst/shiny/server/server_07_biomarker.R inst/shiny/server/server_03_relabu.R inst/shiny/server/server_04_diversity.R inst/shiny/server/server_06_differential.R inst/shiny/server/server_05_dimred.R inst/shiny/server/server_01_upload.R inst/shiny/server/server_02_filter.R inst/shiny/utils/server_util.R inst/shiny/utils/ui_util.R inst/shiny/utils/helpers.R

inst/shiny/www/bu_bioinfo_logo.png

inst/shiny/www/count_table_example.png

inst/shiny/www/ajax-loader-bar.gif

inst/shiny/www/bu_logo.PNG

inst/shiny/www/cbm.PNG

inst/shiny/www/animalcules_logo.png

inst/shiny/www/bootstrap.min.css

inst/shiny/www/footer.html

inst/shiny/ui/ui_06_differential.R inst/shiny/ui/ui_02_filter.R inst/shiny/ui/ui_04_diversity.R inst/shiny/ui/ui_01_upload.R inst/shiny/ui/ui_05_dimred.R inst/shiny/ui/ui_03_relabu.R inst/shiny/ui/ui_07_biomarker.R

inst/extdata/toy_data.rds

inst/extdata/biom_example.rds

inst/extdata/animalcules.rds

inst/extdata/MAE.rds

inst/extdata/asthma_example_dataset.rds

inst/extdata/TB_example_dataset.rds

inst/script/extdata.R

animalcules documentation built on Nov. 8, 2020, 6:47 p.m.