recipe r-ukbrapr

R functions to use in the UK Biobank Research Analysis Platform (RAP)

Homepage:

https://lcpilling.github.io/ukbrapR

Developer docs:

https://github.com/lcpilling/ukbrapR

License:

GPL-3.0-only

Recipe:

/r-ukbrapr/meta.yaml

R functions to use in the UK Biobank Research Analysis Platform (RAP). The aim is to make working in the RAP quicker, easier, and more reproducible. Though some functions require a Spark cluster, the package is mostly aimed to work in a "normal" cluster using RStudio, and raw UK Biobank data from the table-exporter.

package r-ukbrapr

(downloads) docker_r-ukbrapr

versions:

0.2.9-0

depends r-arrow:

>=13.0.0

depends r-base:

>=4.4,<4.5.0a0

depends r-cli:

>=3.6.1

depends r-dplyr:

>=1.1.0

depends r-haven:

>=2.5.0

depends r-lifecycle:

>=1.0.0

depends r-lubridate:

>=1.9.0

depends r-prettyunits:

>=1.0.0

depends r-purrr:

>=1.0.0

depends r-readr:

>=2.0.0

depends r-reticulate:

>=1.34.0

depends r-rlang:

>=1.0.0

depends r-sparklyr:

>=1.8.4

depends r-stringr:

>=1.5.0

requirements:

additional platforms:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install r-ukbrapr

and update with::

   mamba update r-ukbrapr

To create a new environment, run:

mamba create --name myenvname r-ukbrapr

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/r-ukbrapr:<tag>

(see `r-ukbrapr/tags`_ for valid values for ``<tag>``)

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Link to this page

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