recipe bioconductor-timecoursedata

A data package for timecourse RNA-seq and microarray gene expression data sets

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/timecoursedata.html

License:

BSD 3-clause License + file LICENSE

Recipe:

/bioconductor-timecoursedata/meta.yaml

This data package contains timecourse gene expression data sets. The first dataset, from Shoemaker et al, consists of microarray samples from lung tissue of mice exposed to different influenzy strains from 14 timepoints. The two other datasets are leaf and root samples from sorghum crops exposed to pre- and post-flowering drought stress and a control condition, sampled across the plants lifetime.

package bioconductor-timecoursedata

(downloads) docker_bioconductor-timecoursedata

versions:

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

depends bioconductor-data-packages:

>=20231203

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

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-timecoursedata

and update with::

   mamba update bioconductor-timecoursedata

To create a new environment, run:

mamba create --name myenvname bioconductor-timecoursedata

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-timecoursedata:<tag>

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