DOI: 10.18129/B9.bioc.VCFArray  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see VCFArray.

Representing on-disk / remote VCF files as array-like objects

Bioconductor version: 3.16

VCFArray extends the DelayedArray to represent VCF data entries as array-like objects with on-disk / remote VCF file as backend. Data entries from VCF files, including info fields, FORMAT fields, and the fixed columns (REF, ALT, QUAL, FILTER) could be converted into VCFArray instances with different dimensions.

Author: Qian Liu [aut, cre], Martin Morgan [aut]

Maintainer: Qian Liu <qliu7 at>

Citation (from within R, enter citation("VCFArray")):


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biocViews DataRepresentation, Infrastructure, Sequencing, Software, VariantAnnotation
Version 1.14.0
In Bioconductor since BioC 3.9 (R-3.6) (4 years)
License GPL-3
Depends R (>= 3.6), methods, BiocGenerics, DelayedArray(>= 0.7.28)
Imports tools, GenomicRanges, VariantAnnotation(>= 1.29.3), GenomicFiles(>= 1.17.3), S4Vectors(>= 0.19.19), Rsamtools
Suggests SeqArray, BiocStyle, BiocManager, testthat, knitr, rmarkdown
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