Files in microbiome

Microbiome Analytics

README.md R/transform.R R/plot_core.R R/hotplot.R R/summarize_phyloseq.R R/plot_frequencies.R R/map_levels.R R/neat.R R/read_phyloseq.R R/boxplot_abundance.R R/remove_samples.R R/neatsort.R R/top_taxa.R R/coverage.R R/heat.R R/divergence.R R/read_mothur2phyloseq.R R/richness.R R/core.R R/intermediate_stability.R R/core_members.R R/is.phyloseq.R R/bimodality.R R/default_colors.R R/read_taxtable.R R/evenness.R R/is_compositional.R R/write_phyloseq.R R/time_normalize.R R/plot_landscape.R R/aggregate_taxa.R R/timesplit.R R/plot_taxa_prevalence.R R/rare_abundance.R R/rare.R R/plot_composition.R R/alpha.R R/log_modulo_skewness.R R/abundances.R R/readcount.R R/overlap.R R/rare_members.R R/top.R R/group_age.R R/associate.R R/read_biom2phyloseq.R R/dominance.R R/group_bmi.R R/merge_taxa.R R/rarity.R R/core_abundance.R R/collapse_replicates.R R/meta.R R/aggregate_rare.R R/inequality.R R/quiet.R R/microbiome-package.R R/data.R R/read_csv2phyloseq.R R/plot_atlas.R R/prevalence.R R/dominant.R R/baseline.R R/plot_tipping.R R/potential_analysis.R R/spreadplot.R R/diversities.R R/firstlib.R R/global.R R/gktau.R R/time_sort.R R/bfratio.R R/low_abundance.R R/aggregate_top_taxa.R R/taxa.R R/check_phyloseq.R R/plot_regression.R R/plot_density.R R/remove_taxa.R vignettes/main.R vignettes/vignette.Rmd man/read_phyloseq.Rd man/write_phyloseq.Rd man/plot_composition.Rd man/estimate_stability.Rd man/coverage.Rd man/core.Rd man/inequality.Rd man/timesplit.Rd man/baseline.Rd man/richness.Rd man/top_taxa.Rd man/plot_frequencies.Rd man/plot_regression.Rd man/rare.Rd man/multimodality.Rd man/diversity.Rd man/readcount.Rd man/top.Rd man/plot_core.Rd man/associate.Rd man/rare_abundance.Rd man/quiet.Rd man/read_csv2phyloseq.Rd man/gktau.Rd man/dominance.Rd man/remove_samples.Rd man/dietswap.Rd man/plot_atlas.Rd man/boxplot_abundance.Rd man/group_bmi.Rd man/summarize_phyloseq.Rd man/plot_tipping.Rd man/bimodality.Rd man/prevalence.Rd man/core_members.Rd man/hitchip.taxonomy.Rd man/meta.Rd man/ztransform.Rd man/bfratio.Rd man/densityplot.Rd man/alpha.Rd man/aggregate_rare.Rd man/low_abundance.Rd man/spreadplot.Rd man/potential_analysis.Rd man/aggregate_taxa.Rd man/remove_taxa.Rd man/read_mothur2phyloseq.Rd man/core_heatmap.Rd man/time_normalize.Rd man/chunk_reorder.Rd man/neat.Rd man/microbiome-package.Rd man/diversities.Rd man/core_abundance.Rd man/find_optima.Rd man/log_modulo_skewness.Rd man/cmat2table.Rd man/peerj32.Rd man/bimodality_sarle.Rd man/transform.Rd man/plot_taxa_prevalence.Rd man/time_sort.Rd man/abundances.Rd man/plot_density.Rd man/rarity.Rd man/map_levels.Rd man/plot_landscape.Rd man/taxa.Rd man/heat.Rd man/core_matrix.Rd man/overlap.Rd man/evenness.Rd man/global.Rd man/aggregate_top_taxa.Rd man/default_colors.Rd man/atlas1006.Rd man/radial_theta.Rd man/is_compositional.Rd man/merge_taxa2.Rd man/potential_univariate.Rd man/group_age.Rd man/hotplot.Rd man/rare_members.Rd man/divergence.Rd man/intermediate_stability.Rd man/dominant.Rd man/collapse_replicates.Rd man/read_biom2phyloseq.Rd man/neatsort.Rd tests/testthat.R tests/testthat/test_transformations.R tests/testthat/test_neatmap.R tests/testthat/test_divergence.R tests/testthat/test_mappings.R tests/testthat/test_global.R tests/testthat/test_coefficient.of.bimodality.R tests/testthat/test_abundance.R tests/testthat/test_compositional.R tests/testthat/test_age.R tests/testthat/test_core.R tests/testthat/test_bmi.R tests/testthat/test_merge.R inst/doc/vignette.R inst/doc/vignette.Rmd inst/extdata/download.R inst/extdata/group_homogeneity.R inst/extdata/variability_individual.R inst/extdata/plot_crosshyb.R inst/extdata/check_wilcoxon.R inst/extdata/plot_group_composition.R inst/extdata/lm_phyloseq.R inst/extdata/crosshyb_table.R inst/extdata/check_foldchange.R inst/extdata/data.R inst/extdata/harmonize_fields.R inst/extdata/get_hitchip_taxonomy.R inst/extdata/check_anova.R inst/extdata/hit2pseq.R