recipe r-proteus-bartongroup

R package for analysing proteomics data

Homepage:

https://github.com/bartongroup/Proteus

License:

MIT / MIT

Recipe:

/r-proteus-bartongroup/meta.yaml

Proteus is an R package for downstream analysis of MaxQuant output. The input for Proteus is the evidence file. Evidence data are aggregated into peptides and then into proteins. Proteus offers many visualisation and data analysis tools both at peptide and protein level. In particular it allows simple differential expression using limma.

package r-proteus-bartongroup

(downloads) docker_r-proteus-bartongroup

versions:

0.2.16-1,  0.2.16-0

depends bioconductor-limma:

depends r-base:

>=4.3,<4.4.0a0

depends r-dplyr:

depends r-dt:

depends r-ggdendro:

depends r-ggextra:

depends r-ggplot2:

depends r-ggrepel:

depends r-gridextra:

depends r-hexbin:

depends r-reshape2:

depends r-shiny:

depends r-viridis:

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 r-proteus-bartongroup

and update with::

   mamba update r-proteus-bartongroup

To create a new environment, run:

mamba create --name myenvname r-proteus-bartongroup

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/r-proteus-bartongroup:<tag>

(see `r-proteus-bartongroup/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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