recipe bioconductor-exploremodelmatrix

Graphical Exploration of Design Matrices

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-exploremodelmatrix/meta.yaml

Given a sample data table and a design formula, ExploreModelMatrix generates an interactive application for exploration of the resulting design matrix. This can be helpful for interpreting model coefficients and constructing appropriate contrasts in (generalized) linear models. Static visualizations can also be generated.

package bioconductor-exploremodelmatrix

versions:

1.14.0-0,  1.12.0-0,  1.10.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cowplot:

depends r-dplyr:

depends r-dt:

depends r-ggplot2:

depends r-magrittr:

depends r-mass:

depends r-rintrojs:

depends r-scales:

depends r-shiny:

>=1.5.0

depends r-shinydashboard:

depends r-shinyjs:

depends r-tibble:

depends r-tidyr:

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-exploremodelmatrix

and update with::

   mamba update bioconductor-exploremodelmatrix

To create a new environment, run:

mamba create --name myenvname bioconductor-exploremodelmatrix

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-exploremodelmatrix:<tag>

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

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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-exploremodelmatrix/README.html)