recipe bioconductor-spikeli

Affymetrix Spike-in Langmuir Isotherm Data Analysis Tool

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-spikeli/meta.yaml

Links:

biotools: spikeli, doi: 10.1038/nmeth.3252

SpikeLI is a package that performs the analysis of the Affymetrix spike-in data using the Langmuir Isotherm. The aim of this package is to show the advantages of a physical-chemistry based analysis of the Affymetrix microarray data compared to the traditional methods. The spike-in (or Latin square) data for the HGU95 and HGU133 chipsets have been downloaded from the Affymetrix web site. The model used in the spikeLI package is described in details in E. Carlon and T. Heim, Physica A 362, 433 (2006).

package bioconductor-spikeli

(downloads) docker_bioconductor-spikeli

versions:
2.62.0-0,  2.60.0-0,  2.58.0-0,  2.54.0-0,  2.52.0-0,  2.50.0-1,  2.50.0-0,  2.48.0-0,  2.46.0-0, 

2.62.0-0,  2.60.0-0,  2.58.0-0,  2.54.0-0,  2.52.0-0,  2.50.0-1,  2.50.0-0,  2.48.0-0,  2.46.0-0,  2.44.0-1,  2.44.0-0,  2.42.0-0,  2.40.0-0,  2.38.0-0,  2.36.0-0

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-spikeli

and update with::

   mamba update bioconductor-spikeli

To create a new environment, run:

mamba create --name myenvname bioconductor-spikeli

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-spikeli:<tag>

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