Microbiome example data sets
Package: microbiomeDataSets 1.21.0
Leo Lahti
microbiomeDataSets: Experiment Hub based microbiome datasets
microbiomeDataSets is a collection of microbiome datasets loaded from Bioconductor'S ExperimentHub infrastructure. The datasets serve as reference for workflows and vignettes published adjacent to the microbiome analysis tools on Bioconductor. Additional datasets can be added overtime and additions from authors are welcome.
Authors:
microbiomeDataSets_1.21.0.tar.gz
microbiomeDataSets_1.21.0.tar.gz(r-4.7-any)microbiomeDataSets_1.21.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
microbiomeDataSets/json (API)
| # Install 'microbiomeDataSets' in R: |
| install.packages('microbiomeDataSets', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:microbiomeDataSets-1.21.0(data/experiment 3.24)microbiomeDataSets-1.20.0(data/experiment 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
experimenthubexperimentdatamicrobiomedatasequencingdatadatapkg
Last updated from:e26aadcee8. Checks:1 WARNING, 2 NOTE, 1 OK. Indexed: yes.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | WARNING | 152 | ||
| linux-devel | NOTE | 478 | ||
| source / vignettes | OK | 250 | ||
| linux-release | NOTE | 436 |
Exports:artificialgutavailableDataSetsbaboongutdietswapGrieneisenTSDataLahtiMDataLahtiMLDataOKeefeDSDatapeerj32qa10934SilvermanAGutDataSongQADataSprockettTHData
Dependencies:abindAnnotationDbiAnnotationHubapeaskpassBHBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocParallelBiocVersionBiostringsbitbit64blobcachemclicodetoolscpp11crayoncurlDBIdbplyrDelayedArraydigestdplyrExperimentHubfastmapfilelockformatRfsfutile.loggerfutile.optionsgenericsGenomicRangesgluehttrhttr2IRangesjsonliteKEGGRESTlambda.rlatticelazyevallifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeMultiAssayExperimentnlmeopensslpillarpkgconfigpngpurrrR6rappdirsRcpprlangRSQLiteS4ArraysS4VectorsSeqinfoSingleCellExperimentsnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttidytreetreeioTreeSummarizedExperimentutf8vctrswithrXVectoryamlyulab.utils
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Microbiome data sets | microbiomeDataSets-package |
| Load available microbiome data sets | availableDataSets |
| Retrieve GrieneisenTS data | baboongut GrieneisenTSData |
| Obtain the Lahti Microbiome and Lipid data | LahtiMData LahtiMLData peerj32 |
| Obtain the O'Keefe diet swap microbiome data | dietswap OKeefeDSData |
| Obtain the Silverman Artificial Gut data | artificialgut SilvermanAGutData |
| Obtain the Song quality assurance dataset | qa10934 SongQAData |
| Obtain the Sprockett Tsimane Horticulturalists data | SprockettTHData |