From: ReUseData: an R/Bioconductor tool for reusable and reproducible genomic data management
Category | Function | Description |
---|---|---|
data recipe | recipeMake | Create data recipe from scratch or existing shell script |
recipeUpdate | Synchronize and update the data recipes GitHub repository or user-specified private GitHub repository | |
recipeSearch | Search existing data recipes in the cache path of "recipeUpdate" | |
recipeLoad | Load one or more data recipes into the R environment | |
recipeNames | S4 method for "recipeHub" object (data recipe representation in R). Returns the recipe name(s) | |
getData | Evaluation of data recipe to generate curate data file(s) of interest | |
Curated data | dataUpdate | Function to update the local data records by reading the yaml files in the specified directory recursively |
dataSearch | Search specific data files in the local data caching system using one or more keywords | |
dataNames | S4 method for "dataHub" object (data files representation in R). Returns the name(s) of data files | |
dataNotes | S4 method for "dataHub" object. Returns the "notes" of the data that was defined in "getData" | |
dataParams | S4 method for "dataHub" object. Returns the input parameter values for the corresponding data recipe | |
dataPaths | S4 method for "dataHub" object. Returns the file path(s) of corresponding data files | |
dataTags | S4 method for "dataHub" object. Returns the tags of data files (if exist) | |
dataTags < - | Function to assign a string tag to specific data files | |
dataYml | S4 method for "dataHub" object. Returns the yaml file path(s) for corresponding data file(s) | |
getCloudData | Download the pre-generated curated data sets from ReUseData Google Cloud Bucket |