recipe bioconductor-wpm

Well Plate Maker

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-wpm/meta.yaml

The Well-Plate Maker (WPM) is a shiny application deployed as an R package. Functions for a command-line/script use are also available. The WPM allows users to generate well plate maps to carry out their experiments while improving the handling of batch effects. In particular, it helps controlling the "plate effect" thanks to its ability to randomize samples over multiple well plates. The algorithm for placing the samples is inspired by the backtracking algorithm: the samples are placed at random while respecting specific spatial constraints.

package bioconductor-wpm

versions:

1.12.0-0,  1.10.0-0,  1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cli:

depends r-config:

depends r-dplyr:

depends r-dt:

depends r-ggplot2:

depends r-golem:

depends r-logging:

depends r-rcolorbrewer:

depends r-rlang:

depends r-shiny:

depends r-shinycustomloader:

depends r-shinydashboard:

depends r-shinywidgets:

depends r-stringr:

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 bioconductor-wpm

and update with::

   mamba update bioconductor-wpm

To create a new environment, run:

mamba create --name myenvname bioconductor-wpm

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-wpm:<tag>

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

Download stats

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-wpm/README.html)