BiocIO: Standard Input and Output for Bioconductor 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()`.

Package details

AuthorMartin Morgan [aut], Michael Lawrence [aut], Daniel Van Twisk [aut], Bioconductor Package Maintainer [cre]
Bioconductor views Annotation DataImport
MaintainerBioconductor Package Maintainer <>
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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BiocIO documentation built on Nov. 11, 2020, 2:01 a.m.