recipe bioconductor-seqarray

Data Management of Large-Scale Whole-Genome Sequence Variant Calls

Homepage:

https://bioconductor.org/packages/3.16/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:

1.38.0-0,  1.34.0-2,  1.34.0-1,  1.34.0-0,  1.32.0-0,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.26.0-0, 

1.38.0-0,  1.34.0-2,  1.34.0-1,  1.34.0-0,  1.32.0-0,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.26.0-0,  1.24.2-0,  1.22.2-0

Depends:

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-gdsfmt >=1.34.0,<1.35.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

Required By:

• bioconductor-gbscleanr

• bioconductor-ggmanh

• bioconductor-seqvartools

• bioconductor-genesis

• bioconductor-variantexperiment

• bioconductor-saigegds

• bioconductor-gdsarray

Installation

With an activated Bioconda channel (see 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>)

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