Package: BiocIO 1.15.0
Marcel Ramos
BiocIO: Standard Input and Output for Bioconductor Packages
The `BiocIO` package contains high-level abstract classes and generics used by developers to build IO funcionality within the Bioconductor suite of packages. Implements `import()` and `export()` standard generics for importing and exporting biological data formats. `import()` supports whole-file as well as chunk-wise iterative import. The `import()` interface optionally provides a standard mechanism for 'lazy' access via `filter()` (on row or element-like components of the file resource), `select()` (on column-like components of the file resource) and `collect()`. The `import()` interface optionally provides transparent access to remote (e.g. via https) as well as local access. Developers can register a file extension, e.g., `.loom` for dispatch from character-based URIs to specific `import()` / `export()` methods based on classes representing file types, e.g., `LoomFile()`.
Authors:
BiocIO_1.15.0.tar.gz
BiocIO_1.15.0.zip(r-4.5)BiocIO_1.15.0.zip(r-4.4)BiocIO_1.15.0.zip(r-4.3)
BiocIO_1.15.0.tgz(r-4.4-any)BiocIO_1.15.0.tgz(r-4.3-any)
BiocIO_1.15.0.tar.gz(r-4.5-noble)BiocIO_1.15.0.tar.gz(r-4.4-noble)
BiocIO_1.15.0.tgz(r-4.4-emscripten)BiocIO_1.15.0.tgz(r-4.3-emscripten)
BiocIO.pdf |BiocIO.html✨
BiocIO/json (API)
NEWS
| # Install 'BiocIO' in R: |
| install.packages('BiocIO', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/bioconductor/biocio/issues
On BioConductor:BiocIO-1.15.0(bioc 3.20)BiocIO-1.14.0(bioc 3.19)
Last updated 2 months agofrom:5e4bf197de
Exports:BiocFileListdecompressexportFileForFormatfileFormatimportpathresourceresource<-show
Dependencies:BiocGenericsS4Vectors
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| BiocFile class objects | as.character,BiocFile-method BiocFile BiocFile-class BiocFileList BiocFileList-class FileForFormat fileFormat fileFormat,BiocFile-method fileFormat,character-method path path,BiocFile-method resource resource,BiocFile-method resource<- resource<-,BiocFile,character_OR_connection-method show,BiocFile-method |
| File compression | compress CompressedFile-class compression decompress decompress,ANY-method decompress,character-method decompress,CompressedFile-method decompress,GZFile-method fileFormat,CompressedFile-method |
| Import and export | export export,ANY,character,character-method export,ANY,character,missing-method export,ANY,CompressedFile,missing-method export,ANY,connection,character-method export,ANY,connection,missing-method export,ANY,missing,character-method import import,character,character,ANY-method import,character,missing,ANY-method import,CompressedFile,missing,ANY-method import,connection,character,ANY-method import,connection,missing,ANY-method import,missing,ANY,character-method IO |
