Package: ReUseData 1.7.0
Qian Liu
ReUseData: Reusable and reproducible Data Management
ReUseData is an _R/Bioconductor_ software tool to provide a systematic and versatile approach for standardized and reproducible data management. ReUseData facilitates transformation of shell or other ad hoc scripts for data preprocessing into workflow-based data recipes. Evaluation of data recipes generate curated data files in their generic formats (e.g., VCF, bed). Both recipes and data are cached using database infrastructure for easy data management and reuse. Prebuilt data recipes are available through ReUseData portal ("https://rcwl.org/dataRecipes/") with full annotation and user instructions. Pregenerated data are available through ReUseData cloud bucket that is directly downloadable through "getCloudData()".
Authors:
ReUseData_1.7.0.tar.gz
ReUseData_1.7.0.zip(r-4.5)ReUseData_1.7.0.zip(r-4.4)ReUseData_1.7.0.zip(r-4.3)
ReUseData_1.7.0.tgz(r-4.4-any)ReUseData_1.7.0.tgz(r-4.3-any)
ReUseData_1.7.0.tar.gz(r-4.5-noble)ReUseData_1.7.0.tar.gz(r-4.4-noble)
ReUseData_1.7.0.tgz(r-4.4-emscripten)ReUseData_1.7.0.tgz(r-4.3-emscripten)
ReUseData.pdf |ReUseData.html✨
ReUseData/json (API)
NEWS
| # Install 'ReUseData' in R: |
| install.packages('ReUseData', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/rworkflow/reusedata/issues
On BioConductor:ReUseData-1.7.0(bioc 3.21)ReUseData-1.6.0(bioc 3.20)
softwareinfrastructuredataimportpreprocessingimmunooncology
Last updated 2 months agofrom:85fc756e97. Checks:OK: 1 NOTE: 3 ERROR: 3. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 04 2024 |
| R-4.5-win | ERROR | Dec 05 2024 |
| R-4.5-linux | NOTE | Dec 04 2024 |
| R-4.4-win | ERROR | Dec 05 2024 |
| R-4.4-mac | NOTE | Dec 05 2024 |
| R-4.3-win | ERROR | Dec 05 2024 |
| R-4.3-mac | NOTE | Dec 05 2024 |
Exports:annDatadataHubdataNamesdataNotesdataParamsdataPathsdataSearchdataTagsdataTags<-dataUpdatedataYmlgetCloudDatagetDatameta_datarecipeHubrecipeLoadrecipeMakerecipeNamesrecipeSearchrecipeUpdateshowtoList
Dependencies:askpassbackportsbase64encbase64urlbasiliskbasilisk.utilsbatchtoolsBHBiocFileCacheBiocGenericsBiocParallelbitbit64blobbrewbslibcachemcheckmateclicliprcodetoolscolorspacecommonmarkcpp11crayoncurldata.tableDBIdbplyrDiagrammeRdigestdir.expirydplyrevaluatefansifarverfastmapfilelockfontawesomeformatRfsfutile.loggerfutile.optionsgenericsgit2rglueherehighrhmshtmltoolshtmlwidgetshttpuvhttrigraphjquerylibjsonliteknitrlabelinglambda.rlaterlatticelifecyclemagrittrMatrixmemoisemimemunsellopensslpillarpkgconfigplogrpngprettyunitsprogresspromisespurrrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppTOMLRcwlRcwlPipelinesreadrreticulaterlangrmarkdownrprojrootRSQLiterstudioapiS4Vectorssassscalesshinysnowsourcetoolsstringistringrsystibbletidyrtidyselecttinytextzdbutf8vctrsviridisLitevisNetworkvroomwithrxfunxtableyaml
ReUseData: Reusable and Reproducible Data Management
Rendered fromReUseData_data.Rmdusingknitr::rmarkdownon Dec 04 2024.Last update: 2023-11-14
Started: 2022-11-29
ReUseData: Reusable and Reproducible Data Management - quick start
Rendered fromReUseData_quickStart.Rmdusingknitr::rmarkdownon Dec 04 2024.Last update: 2023-11-14
Started: 2023-02-03
ReUseData: Workflow-based Data Recipes for Management of Reusable and Reproducible Data Resources
Rendered fromReUseData_recipe.Rmdusingknitr::rmarkdownon Dec 04 2024.Last update: 2023-11-14
Started: 2022-11-29
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| annData | annData |
| dataHub Class | c,dataHub-method dataHub dataNames dataNotes dataParams dataPaths dataTags dataTags,dataHub-method dataTags<- dataTags<-,dataHub-method dataYml show,dataHub-method toList [,dataHub,ANY,ANY,ANY-method [<-,dataHub,ANY,ANY,ANY-method |
| dataSearch search data in local data caching system | dataSearch |
| dataUpdate | dataUpdate |
| getCloudData Download the pregenerated curated data sets from ReUseData cloud bucket | getCloudData |
| getData | getData |
| meta_data | meta_data |
| recipeHub | recipeHub recipeNames show,recipeHub-method [,recipeHub,ANY,ANY,ANY-method |
| recipeLoad | recipeLoad |
| recipeMake | recipeMake |
| recipeSearch | recipeSearch |
| recipeUpdate | recipeUpdate |
| ReUseData | ReUseData |
