recipe bioconductor-gdsfmt

This package provides a high-level R interface to CoreArray Genomic Data Structure (GDS) data files, which are portable across platforms with hierarchical structure to store multiple scalable array-oriented data sets with metadata information. It is suited for large-scale datasets, especially for data which are much larger than the available random-access memory. The gdsfmt package offers the efficient operations specifically designed for integers of less than 8 bits, since a diploid genotype, like single-nucleotide polymorphism (SNP), usually occupies fewer bits than a byte. Data compression and decompression are available with relatively efficient random access. It is also allowed to read a GDS file in parallel with multiple R processes supported by the package parallel.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/gdsfmt.html

License

LGPL-3

Recipe

/bioconductor-gdsfmt/meta.yaml

package bioconductor-gdsfmt

(downloads) docker_bioconductor-gdsfmt

Versions

1.20.0-0, 1.18.1-0, 1.16.0-0, 1.14.1-0

Depends
  • libgcc-ng >=7.3.0

  • libstdcxx-ng >=7.3.0

  • r-base >=3.5.1,<3.5.2.0a0

Required By

Installation

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

conda install bioconductor-gdsfmt

and update with:

conda update bioconductor-gdsfmt

or use the docker container:

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

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