Package: microbial 0.0.22

microbial: Do 16s Data Analysis and Generate Figures

Provides functions to enhance the available statistical analysis procedures in R by providing simple functions to analysis and visualize the 16S rRNA data.Here we present a tutorial with minimum working examples to demonstrate usage and dependencies.

Authors:Kai Guo [aut, cre], Pan Gao [aut]

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microbial.pdf |microbial.html✨
microbial/json (API)

Peer review:

Bug tracker:https://github.com/guokai8/microbial/issues

On CRAN:

microbiomemicrobiome-analysis

31 exports 12 stars 1.97 score 145 dependencies 2 mentions 19 scripts 425 downloads

Last updated 2 months agofrom:793f5bbc3a. Checks:OK: 1 ERROR: 1 WARNING: 5. Indexed: yes.

Exports:betadivbetatestbiomarkerbuildTreedifftestdistcolordo_aovdo_ttestdo_wilcoxglmrldamarkerlightcolornormalizeotu_tablephy_treeplotalphaplotbarplotbetaplotdiffplotLDAplotmarkerplotqualityprefilterpreRefprocessSeqpsmeltrichnesssample_datasubset_samplessubset_taxatax_table

Dependencies:abindade4apeaskpassbackportsBHBiobaseBiocGenericsBiocParallelbiomformatBiostringsbootbriobroomcallrcarcarDatacliclustercodetoolscolorspacecorrplotcowplotcpp11crayoncurldata.tableDelayedArrayDerivdescDESeq2diffobjdigestdoBydplyredgeRevaluatefansifarverfastmatchforeachformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2ggpubrggrepelggsciggsignifgluegridExtragtablehttrigraphIRangesisobanditeratorsjsonlitelabelinglambda.rlatticelifecyclelimmalme4locfitmagrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmgcvmicrobenchmarkmimeminqamodelrmulttestmunsellnlmenloptrnnetnumDerivopensslpbkrtestpermutephangornphyloseqpillarpixmappkgbuildpkgconfigpkgloadplyrpolynompraiseprocessxpspurrrquadprogquantregR6randomForestRColorBrewerRcppRcppArmadilloRcppEigenrematch2reshape2rhdf5rhdf5filtersRhdf5librlangrprojrootrstatixS4ArraysS4VectorsscalessnowspSparseArraySparseMstatmodstringistringrSummarizedExperimentsurvivalsystestthattibbletidyrtidyselectUCSC.utilsutf8vctrsveganviridisLitewaldowithrXVectorzlibbioc