Files in kimberlyroche/rulesoflife

R/fit_model.R R/gLV_simulations.R R/parse_data.R R/simulation.R R/utility.R R/visuals.R README.md analysis_fit_model.R downsampling_experiment.R generate_sname_mapping.R ggplot_fix.R main_ANOVA.R main_age.R main_network.R main_overview.R main_phylogenetics.R main_rugs.R main_supplement_human.R man/build_between_within_distributions.Rd man/calc_consensus_sign.Rd man/calc_se_decay.Rd man/calc_universality_score.Rd man/calc_universality_score_taxon.Rd man/check_dir.Rd man/convert_alr_Sigma_clr.Rd man/convert_series_clr.Rd man/downsample_counts.Rd man/filter_data.Rd man/filter_joint_zeros.Rd man/fit_GP.Rd man/generate_env_link.Rd man/generate_highcontrast_palette.Rd man/generate_highcontrast_palette2.Rd man/generate_innate_params.Rd man/generate_palette.Rd man/generate_scrambled_data.Rd man/generate_series.Rd man/get_Gamma.Rd man/get_Xi.Rd man/get_host_social_groups.Rd man/get_mean_clr_abundance.Rd man/get_paired_trajectories.Rd man/get_predictions_host_list.Rd man/get_reference_hosts.Rd man/get_tax_label.Rd man/get_trajectory_df.Rd man/hello.Rd man/load_data.Rd man/load_fit.Rd man/load_predictions.Rd man/load_scrambled_data.Rd man/order_rug_col_phylogenetic.Rd man/order_rug_cols_mean_abundance.Rd man/order_rug_row_baseline.Rd man/order_rug_row_diversity.Rd man/order_rug_row_group.Rd man/order_rug_row_pedigree.Rd man/percent_to_k.Rd man/plot_aligned_trajectories.Rd man/plot_clr_vs_diet.Rd man/plot_correlation_histogram.Rd man/plot_downsampling.Rd man/plot_enrichment.Rd man/plot_enrichment_old.Rd man/plot_gLV_bars.Rd man/plot_gLV_heatmap.Rd man/plot_gLV_lines.Rd man/plot_kernel_or_cov_matrix.Rd man/plot_rug.Rd man/plot_trajectories_top_pairs.Rd man/plot_trajectory.Rd man/predict_GP_mean.Rd man/predict_trajectory.Rd man/prune_data.Rd man/pull_Sigmas.Rd man/pull_series.Rd man/render_universal_pairs.Rd man/rug_phylogenetic_distances.Rd man/sequence_distance.Rd man/simulate_series.Rd man/summarize_Sigmas.Rd other_estimates.R path_fix.R simulate.R supplement_PCA.R supplement_abundance-universality.R supplement_hostcontribution.R supplement_informative-sample-number.R supplement_joint_zeros.R supplement_nullmodels.R supplement_other-ALR.R supplement_other-hockeysticks.R supplement_other-rugs.R supplement_seasonal-detrending.R supplement_synchrony.R tables_supplemental.R thresholds.R various_stats.R