recipe bioconductor-isobar

Analysis and quantitation of isobarically tagged MSMS proteomics data

Homepage:

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

License:

LGPL-2

Recipe:

/bioconductor-isobar/meta.yaml

isobar provides methods for preprocessing, normalization, and report generation for the analysis of quantitative mass spectrometry proteomics data labeled with isobaric tags, such as iTRAQ and TMT. Features modules for integrating and validating PTM-centric datasets (isobar-PTM). More information on http://www.ms-isobar.org.

package bioconductor-isobar

(downloads) docker_bioconductor-isobar

versions:
1.48.0-0,  1.46.0-0,  1.44.0-0,  1.40.0-0,  1.38.0-0,  1.36.0-1,  1.36.0-0,  1.34.0-0,  1.32.0-0, 

1.48.0-0,  1.46.0-0,  1.44.0-0,  1.40.0-0,  1.38.0-0,  1.36.0-1,  1.36.0-0,  1.34.0-0,  1.32.0-0,  1.30.0-1,  1.28.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biomart:

>=2.58.0,<2.59.0

depends r-base:

>=4.3,<4.4.0a0

depends r-distr:

depends r-ggplot2:

depends r-plyr:

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-isobar

and update with::

   mamba update bioconductor-isobar

To create a new environment, run:

mamba create --name myenvname bioconductor-isobar

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-isobar:<tag>

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