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Save and Load Variant Data to/from File

Bioconductor version: Release (3.19)

Save variant calling SummarizedExperiment to file and load them back as VCF objects. This is a more portable alternative to serialization of such objects into RDS files. Each artifact is associated with metadata for further interpretation; downstream applications can enrich this metadata with context-specific properties.

Author: Aaron Lun [aut, cre]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at>

Citation (from within R, enter citation("alabaster.vcf")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Saving and loading VCFs HTML R Script
Reference Manual PDF


biocViews DataImport, DataRepresentation, Software
Version 1.4.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License MIT + file LICENSE
Depends alabaster.base, VariantAnnotation
Imports methods, S4Vectors,, alabaster.string, Rsamtools
System Requirements
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Suggests knitr, rmarkdown, BiocStyle, testthat
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Imports Me alabaster
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package alabaster.vcf_1.4.0.tar.gz
Windows Binary
macOS Binary (x86_64) alabaster.vcf_1.4.0.tgz
macOS Binary (arm64) alabaster.vcf_1.4.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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