recipe bioconductor-herper

The Herper package is a simple toolset to install and manage conda packages and environments from R

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/Herper.html

License:

GPL-3

Recipe:

/bioconductor-herper/meta.yaml

Many tools for data analysis are not available in R, but are present in public repositories like conda. The Herper package provides a comprehensive set of functions to interact with the conda package managament system. With Herper users can install, manage and run conda packages from the comfort of their R session. Herper also provides an ad-hoc approach to handling external system requirements for R packages. For people developing packages with python conda dependencies we recommend using basilisk (https://bioconductor.org/packages/release/bioc/html/basilisk.html) to internally support these system requirments pre-hoc.

package bioconductor-herper

(downloads) docker_bioconductor-herper

versions:

1.12.0-1,  1.12.0-0,  1.10.0-0,  1.7.2-0,  1.3.0-0,  1.2.0-0,  1.0.2-0,  1.0.0-1

depends r-base:

>=4.3,<4.4.0a0

depends r-reticulate:

depends r-rjson:

depends r-withr:

requirements:

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 bioconductor-herper

and update with::

   mamba update bioconductor-herper

To create a new environment, run:

mamba create --name myenvname bioconductor-herper

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/bioconductor-herper:<tag>

(see `bioconductor-herper/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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-herper/README.html)