recipe bioconductor-msstatstmt

Protein Significance Analysis in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/MSstatsTMT.html

License:

Artistic-2.0

Recipe:

/bioconductor-msstatstmt/meta.yaml

The package provides statistical tools for detecting differentially abundant proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling. It provides multiple functionalities, including aata visualization, protein quantification and normalization, and statistical modeling and inference. Furthermore, it is inter-operable with other data processing tools, such as Proteome Discoverer, MaxQuant, OpenMS and SpectroMine.

package bioconductor-msstatstmt

Versions:

2.6.0-0,  2.2.0-0,  2.0.0-0,  1.8.2-1,  1.8.2-0,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.5-0, 

2.6.0-0,  2.2.0-0,  2.0.0-0,  1.8.2-1,  1.8.2-0,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.5-0,  1.1.2-0,  1.0.0-0

Depends:

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-msstats >=4.6.0,<4.7.0

• bioconductor-msstatsconvert >=1.8.0,<1.9.0

• r-base >=4.2,<4.3.0a0

• r-checkmate

• r-data.table

• r-ggplot2

• r-lme4

• r-lmertest

Required By:

• bioconductor-msstatsshiny

• bioconductor-msstatsptm

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-msstatstmt

and update with:

conda update bioconductor-msstatstmt

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-msstatstmt:<tag>

(see bioconductor-msstatstmt/tags for valid values for <tag>)

Download stats

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-msstatstmt/README.html)