recipe bioconductor-geoexplorer

GEOexplorer: a webserver for gene expression analysis and visualisation

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-geoexplorer/meta.yaml

GEOexplorer is a webserver and R/Bioconductor package and web application that enables users to perform gene expression analysis. The development of GEOexplorer was made possible because of the excellent code provided by GEO2R (https: //www.ncbi.nlm.nih.gov/geo/geo2r/).

package bioconductor-geoexplorer

versions:

1.8.0-0,  1.6.0-0,  1.4.0-0,  1.0.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-edger:

>=4.0.0,<4.1.0

depends bioconductor-geoquery:

>=2.70.0,<2.71.0

depends bioconductor-impute:

>=1.76.0,<1.77.0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-sva:

>=3.50.0,<3.51.0

depends r-base:

>=4.3,<4.4.0a0

depends r-car:

depends r-dt:

depends r-enrichr:

depends r-factoextra:

depends r-ggplot2:

depends r-heatmaply:

depends r-htmltools:

depends r-httr:

depends r-knitr:

depends r-markdown:

depends r-pheatmap:

depends r-plotly:

depends r-r.utils:

depends r-readxl:

depends r-scales:

depends r-shiny:

depends r-shinybusy:

depends r-shinycssloaders:

depends r-shinyheatmaply:

depends r-stringr:

depends r-umap:

depends r-xfun:

depends r-xml:

depends r-xml2:

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-geoexplorer

and update with::

   mamba update bioconductor-geoexplorer

To create a new environment, run:

mamba create --name myenvname bioconductor-geoexplorer

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-geoexplorer:<tag>

(see `bioconductor-geoexplorer/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-geoexplorer/README.html)