recipe bioconductor-msmstests

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.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/msmsTests.html

License

GPL-2

Recipe

/bioconductor-msmstests/meta.yaml

package bioconductor-msmstests

(downloads) docker_bioconductor-msmstests

Versions

1.20.1-0

Depends bioconductor-edger

>=3.24.0,<3.25.0

Depends bioconductor-msmseda

>=1.20.0,<1.21.0

Depends bioconductor-msnbase

>=2.8.0,<2.9.0

Depends bioconductor-qvalue

>=2.14.0,<2.15.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Requirements

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>)