Introduction | Acknowledgements | Installation | Reference standards | Thesaurus | Taxonomy | Functions | Examples | Reading data and calculating log ratios | A note on the warnings of LogRatios | Dealing with lazy datasets | Using the same ovis reference for all caprines | Pruning the data from cases with no available measure | Condensing log values | Standardizing the dataset nomenclature | Selecting only caprines | Different plots for data visualisation | Horizontal Boxplot with dots grouped by site | Histograms grouped by site | Vertical boxplot with dots grouped by taxon and site | Histograms grouped by taxon and site | Statistical test | How to cite the package zoolog | Bibliography
Package: zoolog 1.1.1.001
zoolog: Zooarchaeological Analysis with Log-Ratios
Includes functions and reference data to generate and manipulate log-ratios (also known as log size index (LSI) values) from measurements obtained on zooarchaeological material. Log ratios are used to compare the relative (rather than the absolute) dimensions of animals from archaeological contexts (Meadow 1999, ISBN: 9783896463883). zoolog is also able to seamlessly integrate data and references with heterogeneous nomenclature, which is internally managed by a zoolog thesaurus. A preliminary version of the zoolog methods was first used by Trentacoste, Nieto-Espinet, and Valenzuela-Lamas (2018) <doi:10.1371/journal.pone.0208109>.
Authors:
zoolog_1.1.1.001.tar.gz
zoolog_1.1.1.001.zip(r-4.7)zoolog_1.1.1.001.zip(r-4.6)zoolog_1.1.1.001.zip(r-4.5)
zoolog_1.1.1.001.tgz(r-4.6-any)zoolog_1.1.1.001.tgz(r-4.5-any)
zoolog_1.1.1.001.tar.gz(r-4.7-any)zoolog_1.1.1.001.tar.gz(r-4.6-any)
zoolog_1.1.1.001.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
zoolog/json (API)
| # Install 'zoolog' in R: |
| install.packages('zoolog', repos = c('https://josempozo.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/josempozo/zoolog/issues
Pkgdown/docs site:https://josempozo.github.io
Datasets:
- reference - References
- referencesDatabase - References
- referenceSets - References
- zoologTaxonomy - Taxonomy hierarchy for 'zoolog'
- zoologThesaurus - Thesaurus Set for 'zoolog'
Last updated from:a7a340a4bf. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 130 | ||
| source / vignettes | OK | 174 | ||
| linux-release-x86_64 | OK | 144 | ||
| macos-release-arm64 | OK | 137 | ||
| macos-oldrel-arm64 | OK | 171 | ||
| windows-devel | OK | 80 | ||
| windows-release | OK | 86 | ||
| windows-oldrel | OK | 73 | ||
| wasm-release | OK | 114 |
Exports:AddToThesaurusAssembleReferenceCondenseLogsGetSpeciesInInCategoryLogRatiosNewThesaurusReadThesaurusReadThesaurusSetRemoveNACasesRemoveRepeatedNamesStandardizeDataSetStandardizeNomenclatureSubtaxonomySubtaxonomySetThesaurusAmbiguityWriteThesaurusWriteThesaurusSet
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Assemble Reference | AssembleReference |
| Condense Measure Log-Ratios | CondenseLogs |
| Example dataset | dataValenzuelaLamas2008 |
| Value Matching by Thesaurus Category | InCategory |
| Log Ratios of Measurements | LogRatios |
| References | reference referencesDatabase referenceSets |
| Remove Cases Missing All Measurements | RemoveNACases |
| Standardize Nomenclature | StandardizeDataSet StandardizeNomenclature |
| Subtaxonomy under taxonomical category | GetSpeciesIn Subtaxonomy SubtaxonomySet |
| Thesaurus Management | AddToThesaurus NewThesaurus RemoveRepeatedNames ThesaurusAmbiguity ThesaurusManagement |
| Thesaurus Readers and Writers | ReadThesaurus ReadThesaurusSet ThesaurusReaderWriter WriteThesaurus WriteThesaurusSet |
| Taxonomy hierarchy for 'zoolog' | zoologTaxonomy |
| Thesaurus Set for 'zoolog' | zoologThesaurus |
