recipe bioconductor-msmstests

LC-MS/MS Differential Expression Tests

Homepage

https://bioconductor.org/packages/3.13/bioc/html/msmsTests.html

License

GPL-2

Recipe

/bioconductor-msmstests/meta.yaml

Statistical tests for label-free LC-MS/MS data by spectral counts, to discover differentially expressed proteins between two biological conditions. Three tests are available: Poisson GLM regression, quasi-likelihood GLM regression, and the negative binomial of the edgeR package.The three models admit blocking factors to control for nuissance variables.To assure a good level of reproducibility a post-test filter is available, where we may set the minimum effect size considered biologicaly relevant, and the minimum expression of the most abundant condition.

package bioconductor-msmstests

Versions

1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.20.1-0

Depends

• bioconductor-edger >=3.34.0,<3.35.0

• bioconductor-msmseda >=1.30.0,<1.31.0

• bioconductor-msnbase >=2.18.0,<2.19.0

• bioconductor-qvalue >=2.24.0,<2.25.0

• r-base >=4.1,<4.2.0a0

Required By

• bioconductor-msnid

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-msmstests

and update with:

conda update bioconductor-msmstests

or use the docker container:

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

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

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-msmstests/README.html)