API for david-barnett/microViz
Microbiome Data Analysis and Visualization
| Global functions | |
|---|---|
| %>% | Man page |
| .onAttach | Source code |
| .onLoad | Source code |
| Ordination-arrows | Man page |
| Ordination-labels | Man page |
| abs_sqrt | Source code |
| abund_calc | Source code |
| addGeomStackedBars | Source code |
| add_paths | Man page Source code |
| adjacent_side | Man page Source code |
| aggregateExcessAsOther | Source code |
| annoSizesCalc | Source code |
| annoWhichFromAnnoSide | Source code |
| annoWhichMatchCheck | Source code |
| anno_abund | Man page Source code |
| anno_cat | Man page Source code |
| anno_catColors | Source code |
| anno_cat_legend | Man page Source code |
| anno_checkExtraArgsLists | Source code |
| anno_prev | Man page Source code |
| anno_sample | Man page Source code |
| anno_sample_cat | Man page Source code |
| anno_tax_box | Man page Source code |
| anno_tax_density | Man page Source code |
| anno_tax_prev | Man page Source code |
| anno_var_box | Man page Source code |
| anno_var_density | Man page Source code |
| anno_var_hist | Man page Source code |
| bdisp_get | Man page Source code |
| buildAesFromListOfStrings | Source code |
| center_plot | Source code |
| checkFixedSampleOrder | Source code |
| checkFormulaOneSided | Source code |
| checkNAs | Source code |
| checkPackageAvailable | Source code |
| checkValidEllipsesOrdPlot | Source code |
| checkVariance | Source code |
| check_is_phyloseq | Source code |
| check_is_psExtra | Source code |
| check_otutable_is_counts | Man page Source code |
| comp_barplot | Man page Source code |
| comp_barplotFixed | Source code |
| comp_heatmap | Man page Source code |
| computeAutoVecLength | Source code |
| constraint_lab_style | Man page Source code |
| cor_heatmap | Man page Source code |
| cor_test | Man page Source code |
| deprecated-heatmap-annotations | Man page |
| df_to_numeric_matrix | Source code |
| distGetSeq | Source code |
| distMatAitchison | Source code |
| distMatUnifrac | Source code |
| dist_bdisp | Man page Source code |
| dist_calc | Man page Source code |
| dist_calc_seq | Man page Source code |
| dist_choices | Source code |
| dist_get | Man page Source code |
| dist_permanova | Man page Source code |
| distinct_palette | Man page Source code |
| errorDuplicatedTaxa | Source code |
| filled_shapes | Source code |
| findNearestSeriationMethods | Source code |
| formula2string | Source code |
| formulaMakerRHSstring | Source code |
| getRankIndex | Source code |
| getTopTaxon | Source code |
| getTruncatedTaxTable | Source code |
| get_plot_limits | Source code |
| ggBarplot | Source code |
| ggmessage | Source code |
| ggplot2_shapes | Source code |
| girafeBarplot | Source code |
| heat_grid | Man page Source code |
| heat_numbers | Man page Source code |
| heat_palette | Man page Source code |
| heatmapMakeCellFun | Source code |
| ibd | Man page |
| info_get | Man page Source code |
| isDistCalcDataPhyloseq | Source code |
| isDominated | Source code |
| isType_bbdml | Source code |
| lab_style | Source code |
| legend_separate | Source code |
| markSelectedSamples | Source code |
| mat_seriate | Source code |
| mat_seriate_dist | Source code |
| microViz | Man page |
| microViz-package | Man page |
| modify_psExtra | Source code |
| modify_psExtraInfo | Source code |
| naOrNull2zeroLenChr | Source code |
| new_psExtraInfo | Man page Source code |
| new_psExtraOrdInfo | Man page Source code |
| old_anno_tax_helper | Source code |
| old_anno_var_box | Man page Source code |
| old_anno_var_hist | Man page Source code |
| opposite_side | Source code |
| ordCheckConditions | Source code |
| ordCheckConstraints | Source code |
| ordCheckDist | Source code |
| ordCheckMethod | Source code |
| ord_arrows | Source code |
| ord_build | Source code |
| ord_calc | Man page Source code |
| ord_caption | Source code |
| ord_choices | Source code |
| ord_code | Source code |
| ord_code_dist | Source code |
| ord_code_paths | Source code |
| ord_code_stat | Source code |
| ord_explore | Man page Source code |
| ord_explore_init | Source code |
| ord_explore_palet_fun | Source code |
| ord_get | Man page Source code |
| ord_ggplot | Source code |
| ord_girafe | Source code |
| ord_labels | Source code |
| ord_order_samples | Man page Source code |
| ord_order_taxa | Man page Source code |
| ord_plot | Man page Source code |
| ord_plot_iris | Man page Source code |
| ord_shape_scale_code | Source code |
| otuAddConstant | Source code |
| otuHalfMin | Source code |
| otuTransform | Source code |
| otuTransformBinary | Source code |
| otuZeroReplace | Source code |
| otu_get | Man page Source code |
| palBrewerPlus | Source code |
| palGreenArmytage | Source code |
| palKelly | Source code |
| perm_get | Man page Source code |
| phyloseq_validate | Man page Source code |
| polygonHollowDefaultAes | Source code |
| prev | Man page Source code |
| prev_calc | Source code |
| print.psExtraInfo | Man page Source code |
| print.psExtraOrdInfo | Source code |
| print.ps_extra | Source code |
| print.ps_extra_info | Source code |
| psCheckRanks | Source code |
| psCheckSamdat | Source code |
| psCheckTaxTable | Source code |
| psCheckVariables | Source code |
| psExtra | Source code |
| psExtra-accessors | Man page |
| psExtra-class | Man page |
| ps_arrange | Man page Source code |
| ps_calc_diversity | Man page Source code |
| ps_calc_dominant | Man page Source code |
| ps_calc_richness | Man page Source code |
| ps_conScale | Source code |
| ps_counts | Man page Source code |
| ps_dedupe | Man page Source code |
| ps_drop_incomplete | Man page Source code |
| ps_extra_arg_deprecation_warning | Source code |
| ps_filter | Man page Source code |
| ps_get | Man page Source code |
| ps_join | Man page Source code |
| ps_melt | Man page Source code |
| ps_mutate | Man page Source code |
| ps_otu2samdat | Man page Source code |
| ps_reorder | Man page Source code |
| ps_select | Man page Source code |
| ps_seriate | Man page Source code |
| ps_sort_ord | Man page Source code |
| ps_split | Source code |
| read_cons | Source code |
| rowSeriationInfo | Source code |
| rowVecNorms | Source code |
| samdatAsDataframe | Man page Source code |
| samdat_init | Source code |
| samdat_tbl | Man page Source code |
| sampleAnnotation | Man page Source code |
| scale_shape_girafe_filled | Man page Source code |
| shao19 | Man page |
| shape_number2name | Source code |
| stat_chull | Man page Source code |
| stopif_ps_extra | Source code |
| subsetTaxaDfLabel | Source code |
| taxAnnotate | Source code |
| taxAnnotation | Man page Source code |
| taxCalcAbund | Source code |
| taxEnsureNamesMatchRank | Source code |
| taxFixPrompt | Source code |
| taxIndexGet | Source code |
| taxMaxEnforce | Source code |
| taxModel2stats | Source code |
| tax_agg | Man page Source code |
| tax_anno | Man page Source code |
| tax_common_unknowns | Source code |
| tax_filter | Man page Source code |
| tax_filter_zeros | Source code |
| tax_fix | Man page Source code |
| tax_fix_interactive | Man page Source code |
| tax_fix_value | Source code |
| tax_lab_style | Man page Source code |
| tax_model | Man page Source code |
| tax_models2stats | Man page Source code |
| tax_models_get | Man page Source code |
| tax_mutate | Man page Source code |
| tax_name | Man page Source code |
| tax_names2rank | Man page Source code |
| tax_palette | Man page Source code |
| tax_palette_plot | Man page Source code |
| tax_prepend_ranks | Man page Source code |
| tax_rename | Man page Source code |
| tax_reorder | Man page Source code |
| tax_reorder_otu | Source code |
| tax_scale | Man page Source code |
| tax_select | Man page Source code |
| tax_sort | Man page Source code |
| tax_sort_by_otu | Source code |
| tax_sort_ord | Man page Source code |
| tax_stats_get | Man page Source code |
| tax_stats_summary | Source code |
| tax_top | Man page Source code |
| tax_transform | Man page Source code |
| tax_transformInfoUpdate | Source code |
| taxatreePruneLabelArgs | Man page Source code |
| taxatree_edges | Man page Source code |
| taxatree_funs | Man page |
| taxatree_label | Man page Source code |
| taxatree_models | Man page Source code |
| taxatree_models2stats | Man page Source code |
| taxatree_modelsCheckDupes | Source code |
| taxatree_modelsGetRanks | Source code |
| taxatree_models_get | Man page Source code |
| taxatree_nodes | Man page Source code |
| taxatree_nodes_checkLoops | Source code |
| taxatree_nodes_ranksAsNumeric | Source code |
| taxatree_plotCircles | Source code |
| taxatree_plotColourScaling | Source code |
| taxatree_plotRootNode | Source code |
| taxatree_plotSizeScaling | Source code |
| taxatree_plot_labels | Man page Source code |
| taxatree_plot_labelsNotCircular | Source code |
| taxatree_plot_labelsQuadrant | Source code |
| taxatree_plot_layout | Source code |
| taxatree_plot_sig | Source code |
| taxatree_plot_sigLegend | Source code |
| taxatree_plot_styling | Source code |
| taxatree_plotkey | Man page Source code |
| taxatree_plots | Man page Source code |
| taxatree_plots_statsCheck | Source code |
| taxatree_stats_get | Man page Source code |
| taxatree_stats_p_adjust | Man page Source code |
| taxatree_stats_summary | Source code |
| taxonModel | Source code |
| taxtabCheckAllChar | Source code |
| textAngleCalc | Man page Source code |
| textHjustCalc | Man page Source code |
| tidy_bbdml | Source code |
| trans_choices | Source code |
| ttCheck | Source code |
| tt_add_topN_var | Source code |
| tt_get | Man page Source code |
| upgrade_ps_extra_info_to_psExtraInfo | Source code |
| upgrade_ps_extra_to_psExtra | Man page Source code |
| validate_psExtraInfo | Source code |
| validate_psExtraOrdInfo | Source code |
| varAnnotate | Source code |
| varAnnotation | Man page Source code |
| var_anno | Man page Source code |
| vecCheckArgList | Source code |
| vecNormEuclid | Source code |
| vec_constraint | Man page Source code |
| vec_tax_all | Man page Source code |
| vec_tax_sel | Man page Source code |
