recipe bioconductor-msmstests

LC-MS/MS Differential Expression Tests

Homepage:

https://bioconductor.org/packages/3.16/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:

1.36.0-0,  1.32.0-0,  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 >=3.40.0,<3.41.0

• bioconductor-msmseda >=1.36.0,<1.37.0

• bioconductor-msnbase >=2.24.0,<2.25.0

• bioconductor-qvalue >=2.30.0,<2.31.0

• r-base >=4.2,<4.3.0a0

Required By:

• bioconductor-msnid

Installation

With an activated Bioconda channel (see 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>)

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