recipe bioconductor-seqarray

Data management of large-scale whole-genome sequence variant calls

Homepage

https://bioconductor.org/packages/3.11/bioc/html/SeqArray.html

License

GPL-3

Recipe

/bioconductor-seqarray/meta.yaml

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

package bioconductor-seqarray

Versions

1.28.0-0,  1.26.0-0,  1.24.2-0,  1.22.2-0

Depends

• bioconductor-biostrings >=2.56.0,<2.57.0

• bioconductor-gdsfmt >=1.24.0,<1.25.0

• bioconductor-genomeinfodb >=1.24.0,<1.25.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.3.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.3.0

• r-base >=4.0,<4.1.0a0

Required By

• bioconductor-saigegds

• bioconductor-gdsarray

• bioconductor-genesis

• bioconductor-variantexperiment

• bioconductor-seqvartools

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-seqarray

and update with:

conda update bioconductor-seqarray

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-seqarray:<tag>

(see bioconductor-seqarray/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-seqarray/README.html)