Package: HybridMicrobiomes 0.1.1
HybridMicrobiomes: Analysis of Host-Associated Microbiomes from Hybrid Organisms
A set of tools to analyze and visualize the relationships between host-associated microbiomes of hybrid organisms and those of their progenitor species. Though not necessary, installing the microViz package is recommended as a check for phyloseq objects. To install microViz from R Universe use the following command: install.packages("microViz", repos = c(davidbarnett = "https://david-barnett.r-universe.dev", getOption("repos"))). To install microViz from GitHub use the following commands: install.packages("devtools") followed by devtools::install_github("david-barnett/microViz").
Authors:
HybridMicrobiomes_0.1.1.tar.gz
HybridMicrobiomes_0.1.1.zip(r-4.5)HybridMicrobiomes_0.1.1.zip(r-4.4)HybridMicrobiomes_0.1.1.zip(r-4.3)
HybridMicrobiomes_0.1.1.tgz(r-4.5-any)HybridMicrobiomes_0.1.1.tgz(r-4.4-any)HybridMicrobiomes_0.1.1.tgz(r-4.3-any)
HybridMicrobiomes_0.1.1.tar.gz(r-4.5-noble)HybridMicrobiomes_0.1.1.tar.gz(r-4.4-noble)
HybridMicrobiomes_0.1.1.tgz(r-4.4-emscripten)HybridMicrobiomes_0.1.1.tgz(r-4.3-emscripten)
HybridMicrobiomes.pdf |HybridMicrobiomes.html✨
HybridMicrobiomes/json (API)
| # Install 'HybridMicrobiomes' in R: |
| install.packages('HybridMicrobiomes', repos = c('https://bewicklab.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 1 years agofrom:c1218ba8cc. Checks:4 OK, 4 NOTE. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Jan 29 2025 |
| R-4.5-win | OK | Jan 29 2025 |
| R-4.5-mac | OK | Jan 29 2025 |
| R-4.5-linux | OK | Jan 29 2025 |
| R-4.4-win | NOTE | Jan 29 2025 |
| R-4.4-mac | NOTE | Jan 29 2025 |
| R-4.3-win | NOTE | Dec 30 2024 |
| R-4.3-mac | NOTE | Dec 30 2024 |
Exports:FourHbootstrapFourHbootstrapAFourHcentroidFourHcompareFourHnullFourHnullplaneFourHnullplaneDFourHpreanalysisFourHquaternaryFourHquaternaryC
Dependencies:abindade4apeaskpassbase64encbayesmbezierBiobaseBiocGenericsbiomformatBiostringsbslibcachemcliclustercodetoolscolorspacecommonmarkcompositionscpp11crayoncurldata.tabledeldirDEoptimRdigestevaluatefansifarverfastmapFNNfontawesomeforeachfsgenericsGenomeInfoDbGenomeInfoDbDatageometryggplot2gluegtablehighrhtmltoolshtmlwidgetshttpuvhttrigraphIRangesisobanditeratorsjpegjquerylibjsonlitekernlabKernSmoothknitrkslabelinglaterlatticelifecyclelinproglpSolvemagicmagrittrMASSMatrixmclustmemoisemgcvmimemulticoolmulttestmunsellmvtnormnlmeopensslPERMANOVApermutephyloseqpillarpixmappkgconfigplyrpngpracmapromisesR6rappdirsRColorBrewerRcppRcppArmadilloRcppProgressreshape2rglrhdf5rhdf5filtersRhdf5librjsonrlangrmarkdownrobustbaseS4VectorssassscalesshinysourcetoolsspStereoMorphstringistringrsurvivalsvgViewRsystensorAtibbletifftinytexUCSC.utilsutf8vctrsveganviridisLitewithrxfunxtableXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Bootstraps of the incidence-based 4H Index | FourHbootstrap |
| Bootstraps of the abundance-based 4H Index | FourHbootstrapA |
| Centroid of bootstrapped 4H-indices | FourHcentroid |
| Tests whether multiple systems have significantly different 4H-indices | FourHcompare |
| Bootstrapped null models of the 4H-index | FourHnull |
| Null Plane | FourHnullplane |
| Bootstrap Distribution Around the Null Plane | FourHnullplaneD |
| Bootstraps of the percentage of gamma diversity that is core | FourHpreanalysis |
| Plot bootstrapped 4H-indices | FourHquaternary |
| Plot centroid of bootstrapped 4H-indices | FourHquaternaryC |
