Package: tabula 3.1.1
tabula: Analysis and Visualization of Archaeological Count Data
An easy way to examine archaeological count data. This package provides several tests and measures of diversity: heterogeneity and evenness (Brillouin, Shannon, Simpson, etc.), richness and rarefaction (Chao1, Chao2, ACE, ICE, etc.), turnover and similarity (Brainerd-Robinson, etc.). It allows to easily visualize count data and statistical thresholds: rank vs abundance plots, heatmaps, Ford (1962) and Bertin (1977) diagrams, etc.
Authors:
tabula_3.1.1.tar.gz
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tabula_3.1.1.tgz(r-4.4-any)tabula_3.1.1.tgz(r-4.3-any)
tabula_3.1.1.tar.gz(r-4.5-noble)tabula_3.1.1.tar.gz(r-4.4-noble)
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tabula.pdf |tabula.html✨
tabula/json (API)
NEWS
# Install 'tabula' in R: |
install.packages('tabula', repos = c('https://tesselle.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/tesselle/tabula/issues
archaeological-sciencearchaeologydata-visualization
Last updated 1 months agofrom:fd8d044791 (on v3.1.1). Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 06 2024 |
R-4.5-win | OK | Oct 06 2024 |
R-4.5-linux | OK | Oct 06 2024 |
R-4.4-win | OK | Oct 06 2024 |
R-4.4-mac | OK | Oct 06 2024 |
R-4.3-win | OK | Oct 06 2024 |
R-4.3-mac | OK | Oct 06 2024 |
Exports:as.data.framebootstrapcolorcompositiondoubletoneppmevennessget_methodheterogeneityindex_aceindex_baxterindex_bergerindex_binomialindex_booneindex_brainerdindex_brayindex_brillouinindex_chao1index_chao2index_codyindex_hurlbertindex_iceindex_jaccardindex_margalefindex_mcintoshindex_menhinickindex_morisitaindex_routledge1index_routledge2index_routledge3index_shannonindex_simpsonindex_sorensonindex_squaresindex_whittakerindex_wilsonjackknifematrigraphobservedoccurrencepalette_color_continuouspalette_color_discretepalette_color_pickerplotplot_bertinplot_diceleraasplot_fordplot_heatmapplot_rankplot_spotprofilespvirarefactionremove_constantremove_NAremove_zeroreplace_NAreplace_zeroresamplerichnessseriographshesimilaritysimulatesingletonsparsitytest_diversitytest_shannontest_simpsonturnover
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Birds Species and Abundances | aves |
Bootstrap Estimation | bootstrap bootstrap,DiversityIndex-method |
Early Magdalenian Engraved Bones | cantabria |
Coerce to a Data Frame | as.data.frame,DiversityIndex-method data.frame |
Heterogeneity and Evenness | evenness evenness,data.frame-method evenness,matrix-method evenness-method heterogeneity heterogeneity,data.frame-method heterogeneity,matrix-method heterogeneity-method |
Abundance-based Coverage Estimator | index_ace index_ace,numeric-method index_ace-method |
Baxter's Rarefaction | index_baxter index_baxter,numeric-method index_baxter-method |
Berger-Parker Dominance Index | index_berger index_berger,numeric-method index_berger-method |
Binomial Co-Occurrence Assessment | index_binomial index_binomial,numeric,numeric-method index_binomial-method |
Boone Heterogeneity Measure | index_boone index_boone,matrix-method index_boone-method |
Brainerd-Robinson Quantitative Index | index_brainerd index_brainerd,numeric,numeric-method index_brainerd-method |
Sorenson Quantitative Index | index_bray index_bray,numeric,numeric-method index_bray-method |
Brillouin Diversity Index. | index_brillouin index_brillouin,numeric-method index_brillouin-method |
Chao1 Estimator | index_chao1 index_chao1,numeric-method index_chao1-method |
Chao2 Estimator | index_chao2 index_chao2,matrix-method index_chao2-method |
Cody Measure | index_cody index_cody,matrix-method index_cody-method |
Hurlbert's Rarefaction | index_hurlbert index_hurlbert,numeric-method index_hurlbert-method |
Incidence-based Coverage Estimator | index_ice index_ice,matrix-method index_ice-method |
Jaccard Index | index_jaccard index_jaccard,character,character-method index_jaccard,logical,logical-method index_jaccard,numeric,numeric-method index_jaccard-method |
Margalef Richness Index | index_margalef index_margalef,numeric-method index_margalef-method |
McIntosh Dominance Index. | index_mcintosh index_mcintosh,numeric-method index_mcintosh-method |
Menhinick Richness Index | index_menhinick index_menhinick,numeric-method index_menhinick-method |
Morisita-Horn Quantitative Index | index_morisita index_morisita,numeric,numeric-method index_morisita-method |
Routledge Measures | index_routledge index_routledge1 index_routledge1,matrix-method index_routledge1-method index_routledge2 index_routledge2,matrix-method index_routledge2-method index_routledge3 index_routledge3,matrix-method index_routledge3-method |
Shannon-Wiener Diversity Index | index_shannon index_shannon,numeric-method index_shannon-method |
Simpson Dominance Index | index_simpson index_simpson,numeric-method index_simpson-method |
Sorenson Qualitative Index | index_sorenson index_sorenson,logical,logical-method index_sorenson,numeric,numeric-method index_sorenson-method |
Squares Estimator | index_squares index_squares,numeric-method index_squares-method |
Whittaker Measure | index_whittaker index_whittaker,matrix-method index_whittaker-method |
Wilson Measure | index_wilson index_wilson,matrix-method index_wilson-method |
Jackknife Estimation | jackknife jackknife,DiversityIndex-method |
Matrigraph | matrigraph matrigraph,data.frame-method matrigraph,matrix-method matrigraph-method pvi pvi,data.frame-method pvi,matrix-method pvi-method |
Get or Set Parts of an Object | get get_method get_method,DiversityIndex-method get_method-method labels,DiversityIndex-method labels,RarefactionIndex-method mutators set |
Number of Observed Species | doubleton doubleton,numeric-method doubleton-method observed observed,numeric-method observed-method singleton singleton,numeric-method singleton-method |
Co-Occurrence | occurrence occurrence,data.frame-method occurrence,matrix-method occurrence-method |
Bertin Diagram | Bertin plot_bertin plot_bertin,data.frame-method plot_bertin,matrix-method plot_bertin-method |
Dice-Leraas Diagram | plot_diceleraas plot_diceleraas,data.frame-method plot_diceleraas,matrix-method plot_diceleraas-method |
Diversity Plot | plot,DiversityIndex,missing-method plot_diversity |
Ford Diagram | Ford plot_ford plot_ford,data.frame-method plot_ford,matrix-method plot_ford-method |
Heatmap | plot_heatmap plot_heatmap,data.frame-method plot_heatmap,dist-method plot_heatmap,matrix-method plot_heatmap-method |
Rank Plot | plot_rank plot_rank,data.frame-method plot_rank,matrix-method plot_rank-method |
Rarefaction Plot | plot,RarefactionIndex,missing-method plot_rarefaction |
Spot Plot | plot_spot plot_spot,data.frame-method plot_spot,dist-method plot_spot,matrix-method plot_spot-method |
Diversity Profiles | profiles profiles,data.frame-method profiles,matrix-method profiles-method |
Pueblo IV Period Ceramics | pueblo |
Rarefaction | rarefaction rarefaction,data.frame-method rarefaction,matrix-method rarefaction-method |
Resample | resample resample,numeric-method resample-method |
Richness | composition composition,data.frame-method composition,matrix-method composition-method richness richness,data.frame-method richness,matrix-method richness-method |
Seriograph | eppm eppm,data.frame-method eppm,matrix-method eppm-method seriograph seriograph,data.frame-method seriograph,matrix-method seriograph-method |
SHE Analysis | she she,data.frame-method she,matrix-method she-method |
Similarity | similarity similarity,data.frame-method similarity,matrix-method similarity-method |
Measure Diversity by Comparing to Simulated Assemblages | simulate simulate,DiversityIndex-method |
Diversity Test | test test_shannon test_shannon,data.frame,missing-method test_shannon,matrix,missing-method test_shannon,numeric,numeric-method test_shannon-method test_simpson test_simpson,data.frame,missing-method test_simpson,matrix,missing-method test_simpson,numeric,numeric-method test_simpson-method |
Turnover | turnover turnover,data.frame-method turnover,matrix-method turnover-method |
Trees Incidences | woodland |