recipe bioconductor-eximir

R functions for the normalization of Exiqon miRNA array data

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/ExiMiR.html

License:

GPL-2

Recipe:

/bioconductor-eximir/meta.yaml

Links:

biotools: eximir, doi: 10.1186/1756-0500-7-302

This package contains functions for reading raw data in ImaGene TXT format obtained from Exiqon miRCURY LNA arrays, annotating them with appropriate GAL files, and normalizing them using a spike-in probe-based method. Other platforms and data formats are also supported.

package bioconductor-eximir

(downloads) docker_bioconductor-eximir

versions:
2.48.0-0,  2.44.0-0,  2.42.0-0,  2.40.0-0,  2.36.0-0,  2.34.0-0,  2.32.0-1,  2.32.0-0,  2.30.0-0, 

2.48.0-0,  2.44.0-0,  2.42.0-0,  2.40.0-0,  2.36.0-0,  2.34.0-0,  2.32.0-1,  2.32.0-0,  2.30.0-0,  2.28.0-0,  2.26.0-1,  2.24.0-0,  2.22.0-0,  2.20.0-0

depends bioconductor-affy:

>=1.84.0,<1.85.0

depends bioconductor-affyio:

>=1.76.0,<1.77.0

depends bioconductor-biobase:

>=2.66.0,<2.67.0

depends bioconductor-limma:

>=3.62.0,<3.63.0

depends bioconductor-preprocesscore:

>=1.68.0,<1.69.0

depends r-base:

>=4.4,<4.5.0a0

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-eximir

and update with::

   mamba update bioconductor-eximir

To create a new environment, run:

mamba create --name myenvname bioconductor-eximir

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-eximir:<tag>

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