DOI: 10.18129/B9.bioc.SeqArray    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see SeqArray.

Big Data Management of Whole-genome Sequence Variant Calls

Bioconductor version: 3.7

Big data management of whole-genome sequencing variant calls with thousands of individuals: genotypic data (e.g., SNVs, indels and structural variation calls) and annotations in SeqArray files are stored in an array-oriented and compressed manner, with efficient data access using the R programming language.

Author: Xiuwen Zheng [aut, cre], Stephanie Gogarten [aut], David Levine [ctb], Cathy Laurie [ctb]

Maintainer: Xiuwen Zheng <zhengx at>

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HTML R Script SeqArray Data Format and Access
HTML SeqArray Overview
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biocViews DataRepresentation, Genetics, Infrastructure, Sequencing, Software
Version 1.20.2
In Bioconductor since BioC 2.12 (R-3.0) (5.5 years)
License GPL-3
Depends R (>= 3.5.0), gdsfmt(>= 1.10.1)
Imports methods, parallel, IRanges, GenomicRanges, GenomeInfoDb, Biostrings, S4Vectors
LinkingTo gdsfmt
Suggests digest, crayon, RUnit, knitr, Rcpp, SNPRelate, Biobase, BiocParallel, BiocGenerics, Rsamtools, VariantAnnotation
Depends On Me SeqVarTools
Imports Me GDSArray, GENESIS
Suggests Me
Links To Me
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