To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("SeqArray")
In most cases, you don't need to download the package archive at all.
Bioconductor version: Release (3.5)
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 u.washington.edu>
Citation (from within R,
enter citation("SeqArray")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("SeqArray")
HTML | R Script | R Integration |
HTML | R Script | SeqArray Data Format and Access |
HTML | SeqArray Overview | |
Reference Manual | ||
Text | NEWS |
biocViews | DataRepresentation, Genetics, Infrastructure, Sequencing, Software |
Version | 1.16.1 |
In Bioconductor since | BioC 2.12 (R-3.0) (4.5 years) |
License | GPL-3 |
Depends | R (>= 3.3.0), gdsfmt(>= 1.10.1) |
Imports | methods, parallel, S4Vectors, IRanges, GenomicRanges, GenomeInfoDb, SummarizedExperiment, Biostrings, VariantAnnotation |
LinkingTo | gdsfmt |
Suggests | BiocParallel, digest, crayon, RUnit, Biobase, BiocGenerics, knitr, Rcpp, SNPRelate |
SystemRequirements | |
Enhances | |
URL | http://github.com/zhengxwen/SeqArray |
BugReports | http://github.com/zhengxwen/SeqArray/issues |
Depends On Me | SeqVarTools |
Imports Me | GENESIS |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | SeqArray_1.16.1.tar.gz |
Windows Binary | SeqArray_1.16.1.zip (32- & 64-bit) |
Mac OS X 10.11 (El Capitan) | SeqArray_1.16.1.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/SeqArray |
Package Short Url | http://bioconductor.org/packages/SeqArray/ |
Package Downloads Report | Download Stats |
Documentation »
Bioconductor
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations: