Package: mecoturn 0.3.1
mecoturn: Decipher Microbial Turnover along a Gradient
Two pipelines are provided to study microbial turnover along a gradient, including the beta diversity and microbial abundance change. The 'betaturn' class consists of the steps of community dissimilarity matrix generation, matrix conversion, differential test and visualization. The workflow of 'taxaturn' class includes the taxonomic abundance calculation, abundance transformation, abundance change summary, statistical analysis and visualization. Multiple statistical approaches can contribute to the analysis of microbial turnover.
Authors:
mecoturn_0.3.1.tar.gz
mecoturn_0.3.1.zip(r-4.5)mecoturn_0.3.1.zip(r-4.4)mecoturn_0.3.1.zip(r-4.3)
mecoturn_0.3.1.tgz(r-4.4-any)mecoturn_0.3.1.tgz(r-4.3-any)
mecoturn_0.3.1.tar.gz(r-4.5-noble)mecoturn_0.3.1.tar.gz(r-4.4-noble)
mecoturn_0.3.1.tgz(r-4.4-emscripten)mecoturn_0.3.1.tgz(r-4.3-emscripten)
mecoturn.pdf |mecoturn.html✨
mecoturn/json (API)
| # Install 'mecoturn' in R: |
| install.packages('mecoturn', repos = c('https://chiliubio.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/chiliubio/mecoturn/issues
- wheat_16S - The example dataset in the mecoturn package
Last updated 2 months agofrom:770db266a5. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 28 2024 |
| R-4.5-win | NOTE | Oct 28 2024 |
| R-4.5-linux | NOTE | Oct 28 2024 |
| R-4.4-win | NOTE | Oct 28 2024 |
| R-4.4-mac | NOTE | Oct 28 2024 |
| R-4.3-win | NOTE | Oct 28 2024 |
| R-4.3-mac | NOTE | Oct 28 2024 |
Dependencies:abindapebackportsbetaregbootbroomcarcarDatacliclueclustercodetoolscolorspacecorrplotcowplotcpp11data.tableDerivdigestdirmultdoBydplyrfansifarverfBasicsflexmixforeachFormulagenericsggplot2ggpubrggrepelggsciggsignifglmmTMBgluegridExtragssgtableGUniFracigraphinlineisobanditeratorslabelinglatticelifecyclelme4lmerTestlmtestmagrittrMASSMatrixMatrixModelsmatrixStatsmgcvmicrobenchmarkmicroecominqamodeestmodelrmodeltoolsmunsellnlmenloptrnnetnumDerivpbkrtestpermutepillarpkgconfigplyrpolynompurrrquantregR6rbibutilsRColorBrewerRcppRcppEigenRdpackreformulasreshape2rlangrmutilrpartrstatixsandwichscalesSparseMspatialstablestablediststatipstatmodstringistringrsurvivaltibbletidyrtidyselecttimeDatetimeSeriesTMButf8vctrsveganviridisLitewithrzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Analyze the 'turnover' of microbial communities. | betaturn |
| Analyze the 'turnover' of taxa. | taxaturn |
| The example dataset in the mecoturn package | wheat_16S |
