recipe bioconductor-oppti

Outlier Protein and Phosphosite Target Identifier

Homepage:

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

License:

MIT

Recipe:

/bioconductor-oppti/meta.yaml

The aim of oppti is to analyze protein (and phosphosite) expressions to find outlying markers for each sample in the given cohort(s) for the discovery of personalized actionable targets.

package bioconductor-oppti

versions:

1.16.0-0,  1.14.0-0,  1.12.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends r-base:

>=4.3,<4.4.0a0

depends r-devtools:

depends r-ggplot2:

depends r-knitr:

depends r-paralleldist:

depends r-pheatmap:

depends r-rcolorbrewer:

depends r-reshape:

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-oppti

and update with::

   mamba update bioconductor-oppti

To create a new environment, run:

mamba create --name myenvname bioconductor-oppti

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-oppti:<tag>

(see `bioconductor-oppti/tags`_ for valid values for ``<tag>``)

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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-oppti/README.html)