recipe bioconductor-tidysummarizedexperiment

Brings SummarizedExperiment to the Tidyverse

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-tidysummarizedexperiment/meta.yaml

The tidySummarizedExperiment package provides a set of tools for creating and manipulating tidy data representations of SummarizedExperiment objects. SummarizedExperiment is a widely used data structure in bioinformatics for storing high-throughput genomic data, such as gene expression or DNA sequencing data. The tidySummarizedExperiment package introduces a tidy framework for working with SummarizedExperiment objects. It allows users to convert their data into a tidy format, where each observation is a row and each variable is a column. This tidy representation simplifies data manipulation, integration with other tidyverse packages, and enables seamless integration with the broader ecosystem of tidy tools for data analysis.

package bioconductor-tidysummarizedexperiment

versions:

1.12.0-0,  1.10.0-0,  1.8.0-0,  1.4.1-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cli:

depends r-dplyr:

depends r-ellipsis:

depends r-fansi:

depends r-ggplot2:

depends r-lifecycle:

depends r-magrittr:

depends r-pillar:

depends r-pkgconfig:

depends r-plotly:

depends r-purrr:

depends r-rlang:

depends r-stringr:

depends r-tibble:

>=3.0.4

depends r-tidyr:

depends r-tidyselect:

depends r-ttservice:

depends r-vctrs:

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-tidysummarizedexperiment

and update with::

   mamba update bioconductor-tidysummarizedexperiment

To create a new environment, run:

mamba create --name myenvname bioconductor-tidysummarizedexperiment

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-tidysummarizedexperiment:<tag>

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