DOI: 10.18129/B9.bioc.biomformat    

This is the development version of biomformat; for the stable release version, see biomformat.

An interface package for the BIOM file format

Bioconductor version: Development (3.8)

This is an R package for interfacing with the BIOM format. This package includes basic tools for reading biom-format files, accessing and subsetting data tables from a biom object (which is more complex than a single table), as well as limited support for writing a biom-object back to a biom-format file. The design of this API is intended to match the python API and other tools included with the biom-format project, but with a decidedly "R flavor" that should be familiar to R users. This includes S4 classes and methods, as well as extensions of common core functions/methods.

Author: Paul J. McMurdie <mcmurdie at> and Joseph N Paulson <jpaulson at>

Maintainer: Paul J. McMurdie <mcmurdie at>

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biocViews DataImport, Metagenomics, Microbiome, Software
Version 1.9.0
In Bioconductor since BioC 3.3 (R-3.3) (2 years)
License GPL-2
Depends R (>= 3.2), methods
Imports plyr (>= 1.8), jsonlite (>= 0.9.16), Matrix (>= 1.2), rhdf5
Suggests testthat (>= 0.10), knitr (>= 1.10), BiocStyle(>= 1.6), rmarkdown (>= 0.7)
Depends On Me
Imports Me phyloseq
Suggests Me metagenomeSeq
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