Files in SWittouck/tidyamplicons
Functions to Manipulate and Visualize Amplicon Abundance Data
.Rbuildignore
.github/.gitignore
.github/workflows/R-CMD-check.yaml
.github/workflows/pkgdown.yaml
.github/workflows/test-coverage.yaml
.gitignore
DESCRIPTION
NAMESPACE
R/adders_abundances.R
R/adders_samples.R
R/adders_taxa.R
R/codifab.R
R/converters.R
R/getters.R
R/handlers.R
R/plotters.R
R/synonyms.R
R/tidyamplicons.R
R/utils-pipe.R
R/utils-tidy-eval.R
R/utils.R
R/varia.R
README.md
codecov.yml
data/urt.rda
man/abundances.Rd
man/abundances_matrix.Rd
man/add_alphas.Rd
man/add_cluster.Rd
man/add_codifab.Rd
man/add_copca.Rd
man/add_diversity_measures.Rd
man/add_jervis_bardy.Rd
man/add_lib_size.Rd
man/add_logratios.Rd
man/add_max_rel_abundance.Rd
man/add_mean_rel_abundances.Rd
man/add_occurrences.Rd
man/add_pcoa.Rd
man/add_presence_counts.Rd
man/add_rel_abundance.Rd
man/add_rel_occurrence.Rd
man/add_sample_clustered.Rd
man/add_sample_tibble.Rd
man/add_spike_ratio.Rd
man/add_taxon_name.Rd
man/add_taxon_name_color.Rd
man/add_taxon_tibble.Rd
man/add_total_rel_abundance.Rd
man/aggregate_samples.Rd
man/aggregate_taxa.Rd
man/as_abundances.Rd
man/as_abundances_matrix.Rd
man/as_phyloseq.Rd
man/as_tidyamplicons.Rd
man/bar_plot.Rd
man/bar_plot_ly.Rd
man/betas.Rd
man/change_id_samples.Rd
man/change_id_taxa.Rd
man/classify_taxa.Rd
man/codifab_plot.Rd
man/create_test_ta.Rd
man/create_tidyamplicons.Rd
man/everything.Rd
man/figures/hex-tidyamplicons.png
man/filter_abundances.Rd
man/filter_samples.Rd
man/filter_taxa.Rd
man/get_abundances_extended.Rd
man/get_bar_plot.Rd
man/get_betas.Rd
man/get_history_plot.Rd
man/get_numbers.Rd
man/get_rel_abundance_matrix.Rd
man/history_plot.Rd
man/make_tidyamplicons.Rd
man/mean_rel_abundances.Rd
man/merge_samples.Rd
man/merge_taxa.Rd
man/merge_tidyamplicons.Rd
man/mutate_abundances.Rd
man/mutate_samples.Rd
man/mutate_taxa.Rd
man/numbers.Rd
man/occurrences.Rd
man/pcoa_plot_ly.Rd
man/perform_adonis.Rd
man/pipe.Rd
man/process_abundance_selection.Rd
man/process_sample_selection.Rd
man/process_taxon_selection.Rd
man/rank_names.Rd
man/rarefy.Rd
man/read_tidyamplicons.Rd
man/remove_empty_samples.Rd
man/report_numbers.Rd
man/reset_ids.Rd
man/sample_plot.Rd
man/samples.Rd
man/select_abundances.Rd
man/select_samples.Rd
man/select_taxa.Rd
man/set_rank_names.Rd
man/taxa.Rd
man/taxon_counts_in_conditions.Rd
man/tidy_phyloseq.Rd
man/tidyamplicons.Rd
man/tidyeval.Rd
man/trim_asvs.Rd
man/update_id_names.Rd
man/update_lib_sizes.Rd
man/update_tidyamplicons.Rd
man/write_tidyamplicons.Rd
tests/testthat.R
tests/testthat/_snaps/getters.md
tests/testthat/_snaps/plotters/custom-barplot.svg
tests/testthat/_snaps/plotters/default-barplot.svg
tests/testthat/data/test_db.fa
tests/testthat/data/urt.rda
tests/testthat/data/urt/abundances.csv
tests/testthat/data/urt/samples.csv
tests/testthat/data/urt/taxa.csv
tests/testthat/test-adders_samples.R
tests/testthat/test-adders_taxa.R
tests/testthat/test-codifab.R
tests/testthat/test-converters.R
tests/testthat/test-getters.R
tests/testthat/test-handlers.R
tests/testthat/test-plotters.R
tests/testthat/test-varia.R
