Files in ying14/yingtools2
Ying's R Tools
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/addins.R
R/data_release.R
R/datasets.R
R/deprecated.R
R/microbiota2.R
R/yingtools2-package.R
R/yingtools2.R
README.Rmd
README.md
common.R
data-raw/cli_reference.R
data/4_plot_klebsiella_pts.png
data/5_klebsiella_abundance.png
data/CID94_lefse.png
data/cid.bsi.rda
data/cid.cdiff.rda
data/cid.hosp.rda
data/cid.meds.rda
data/cid.patients.rda
data/cid.phy.rda
data/fig1.png
data/ggstack_sample.png
data/stcox_firstexample.png
data/stcox_multivariate.png
data/univariate_manyvars.png
examples/cid.diversity.Rmd
examples/cid.diversity.md
examples/cid.diversity_files/figure-markdown_github/unnamed-chunk-3-1.png
examples/cid.diversity_files/figure-markdown_github/unnamed-chunk-4-1.png
examples/cid.diversity_files/figure-markdown_github/unnamed-chunk-5-1.png
examples/cid.hclust.Rmd
examples/cid.hclust.md
examples/cid.hclust_files/figure-markdown_github/unnamed-chunk-2-1.png
examples/cid.hclust_files/figure-markdown_github/unnamed-chunk-3-1.png
examples/cid.hclust_files/figure-markdown_github/unnamed-chunk-4-1.png
examples/commands.Rmd
examples/commands.knit.md
examples/commands.md
examples/commands.utf8.md
examples/curriculum.Rmd
examples/curriculum.html
examples/curriculum.md
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examples/curriculum_files/figure-gfm/ggplot-1.png
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examples/exercises.Rmd
examples/exercises.md
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examples/features.Rmd
examples/features.md
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examples/patients.pdf
examples/pcoa.Rmd
examples/pcoa.md
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examples/phylotree.Rmd
examples/phylotree.md
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examples/regex.Rmd
examples/regex.md
examples/taxbar.Rmd
examples/taxbar.md
examples/taxbar_files/figure-gfm/unnamed-chunk-3-1.png
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examples/taxhclust.Rmd
examples/xcommands.Rmd
inst/rstudio/addins.dcf
man/GeomTaxonomy.Rd
man/GuideTaxonomy.Rd
man/LayerTaxonomy.Rd
man/StatTaxonomy.Rd
man/age.years.Rd
man/all.grepl.Rd
man/all.same.Rd
man/annotation_ruler.Rd
man/any_overlap.Rd
man/as.Date2.Rd
man/as.mrn.Rd
man/as.phylo.formula2.Rd
man/as_date_fractional.Rd
man/bracketGrob.Rd
man/calc.distance.Rd
man/calc.mean.distance.Rd
man/calc.pairwise.Rd
man/calc.taxhorn.distance.Rd
man/chop.endpoint.Rd
man/cid.bsi.Rd
man/cid.cdiff.Rd
man/cid.colors.Rd
man/cid.hosp.Rd
man/cid.meds.Rd
man/cid.patients.Rd
man/cid.phy.Rd
man/cleanup.data.Rd
man/cli_table.Rd
man/coalesce_indicators.Rd
man/coalesce_values.Rd
man/compare.Rd
man/compare_relationship.Rd
man/convert.dates.Rd
man/copy.as.select.Rd
man/copy.as.tribble.Rd
man/copy.to.clipboard.Rd
man/cox.Rd
man/cox.old.Rd
man/createSurvivalFrame.Rd
man/cummax.Rd
man/cut2.Rd
man/date.regex.Rd
man/declare.args.Rd
man/deparse2.Rd
man/draw_key_polygon_close.Rd
man/dt.Rd
man/fan.angle.Rd
man/fct_reordern.Rd
man/figures/lifecycle-archived.svg
man/figures/lifecycle-defunct.svg
man/figures/lifecycle-deprecated.svg
man/figures/lifecycle-experimental.svg
man/figures/lifecycle-maturing.svg
man/figures/lifecycle-questioning.svg
man/figures/lifecycle-stable.svg
man/figures/lifecycle-superseded.svg
man/figures/unnamed-chunk-1-1.png
man/file_activity_status.Rd
man/fill_in_blanks.Rd
man/find.all.distinct.vars.Rd
man/fungal.palette.Rd
man/geom_bracket.Rd
man/geom_hilight.Rd
man/geom_kaplanmeier.Rd
man/geom_logrank.Rd
man/geom_taxonomy.Rd
man/geom_taxonomy_interactive.Rd
man/geom_timeline.Rd
man/geom_timeline_interactive.Rd
man/get.abundance.Rd
man/get.all.dependencies.Rd
man/get.code.info.Rd
man/get.dist.Rd
man/get.environment.locations.Rd
man/get.otu.Rd
man/get.otu.melt.Rd
man/get.pairwise.Rd
man/get.phyloseq.from.melt.Rd
man/get.row.OLD.Rd
man/get.row.Rd
man/get.samp.Rd
man/get.tax.Rd
man/get.tax.legend.Rd
man/get.tax.legend2.Rd
man/get.tax.palette.Rd
man/get.taxonomy.colordata.Rd
man/get.time.Rd
man/get.yt.palette.Rd
man/get.yt.palette2.Rd
man/get_epsilon.Rd
man/gg.align.xlim.Rd
man/gg.axis.limits.Rd
man/gg.colors.Rd
man/gg.legend.Rd
man/gg.stack.Rd
man/gg.stack2.Rd
man/git_release.Rd
man/grapes-allin-grapes.Rd
man/grapes-find-grapes.Rd
man/grapes-grapes.Rd
man/grapes-notin-grapes.Rd
man/group_by_all_distinct.Rd
man/group_by_time.Rd
man/group_by_time_streaks.Rd
man/group_split_named.Rd
man/guide_gengrob.taxonomy.Rd
man/guide_geom.taxonomy.Rd
man/guide_taxonomy.Rd
man/guide_taxonomyOLD.Rd
man/guide_train.taxonomy.Rd
man/hilight.clade.Rd
man/inner_join_fuzzy.Rd
man/inner_join_replace.Rd
man/inner_join_replace_old.Rd
man/is.between.Rd
man/is.distinct.Rd
man/is.mrn.Rd
man/is.one.to.one.Rd
man/is.same.Rd
man/is.wholenumber.Rd
man/kill_port_process.Rd
man/lda.clado.Rd
man/lda.effect.Rd
man/lda.plot.Rd
man/lefse.prep.Rd
man/like.Rd
man/list.all.exported.functions.Rd
man/list.gg.items.Rd
man/log_epsilon_trans.Rd
man/log_epsilon_trans_breaks.Rd
man/logistic.Rd
man/logistic_trans.Rd
man/logistic_trans_breaks.Rd
man/logit.Rd
man/lookahead.Rd
man/ls.object.sizes.Rd
man/make.datetime.Rd
man/make.names.Rd
man/make.surv.endpt.Rd
man/make.table.Rd
man/makeContent.taxfittexttree.Rd
man/make_table.Rd
man/make_taxonomy_distinct.Rd
man/max2.Rd
man/middle.pattern.Rd
man/midpoint.Rd
man/mutate.phyloseq.Rd
man/occurs.within.Rd
man/old3.phy.collapse.bins.Rd
man/overlaps.Rd
man/paste2.Rd
man/pca.plot.Rd
man/phy.calc.relative.abundance.Rd
man/phy.collapse.Rd
man/phy.collapse.bins.Rd
man/phy.collapse.bins.old.Rd
man/phy.unfold.taxranks.Rd
man/phy.use.tax.tree.Rd
man/pipe.Rd
man/pivot_wider_recode.Rd
man/pretty_number.Rd
man/pretty_scientific.Rd
man/prune_unused_taxa.Rd
man/read.blastn.file.Rd
man/read.clipboard.Rd
man/read.mothur.taxfile.Rd
man/read.oligos.Rd
man/read.otu.table.Rd
man/read.tree.uparse.Rd
man/read.uparse.data.Rd
man/read_all_excel.Rd
man/read_excel2.Rd
man/recode2.Rd
man/regex.widget.Rd
man/remove.na.cols.Rd
man/remove.na.rows.Rd
man/replace.grep.Rd
man/replace.grep.data.Rd
man/replace_grep_data.Rd
man/runGadget_bg.Rd
man/run_r.Rd
man/sample_groups.Rd
man/sample_n_groups_OLD.Rd
man/scale_fill_taxonomy.Rd
man/scale_sample.colour_discrete.Rd
man/scale_x_timebars.Rd
man/search.data.columns.Rd
man/select2.Rd
man/set.otu.Rd
man/set.samp.Rd
man/set.tax.Rd
man/set_precedence.Rd
man/shades.Rd
man/shell.exec.Rd
man/short_number.Rd
man/show_linetypes.Rd
man/show_shapes.Rd
man/stcox.Rd
man/str_extract_all_quotes.Rd
man/str_split_equal_parts.Rd
man/style_selection_4096.Rd
man/style_selection_oneline.Rd
man/survival.frame.atrisk.table.Rd
man/survival.frame.info.Rd
man/tab.Rd
man/tax.plot.Rd
man/taxfittextGrob.Rd
man/taxonomy_is_distinct.Rd
man/taxonomy_scale.Rd
man/test_if_nonvarying_by_group.Rd
man/traverse.Rd
man/univariate.cox.Rd
man/univariate.logistic.Rd
man/univariate.logit.Rd
man/univariate.stcox.Rd
man/view.distance.matrix.Rd
man/write_all_excel.Rd
man/yingtools2-package.Rd
man/yingtools2.Rd
man/yt.palette2.Rd
man/yt.palette3.Rd
tests/testthat.R
tests/testthat/test-microbiota2.R
tests/testthat/test-yingtools2.R
yingtools2.Rproj
