recipe bioconductor-proteomm

Multi-Dataset Model-based Differential Expression Proteomics Analysis Platform

Homepage

https://bioconductor.org/packages/3.11/bioc/html/ProteoMM.html

License

MIT

Recipe

/bioconductor-proteomm/meta.yaml

ProteoMM is a statistical method to perform model-based peptide-level differential expression analysis of single or multiple datasets. For multiple datasets ProteoMM produces a single fold change and p-value for each protein across multiple datasets. ProteoMM provides functionality for normalization, missing value imputation and differential expression. Model-based peptide-level imputation and differential expression analysis component of package follows the analysis described in “A statistical framework for protein quantitation in bottom-up MS based proteomics" (Karpievitch et al. Bioinformatics 2009). EigenMS normalisation is implemented as described in "Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition." (Karpievitch et al. Bioinformatics 2009).

package bioconductor-proteomm

(downloads) docker_bioconductor-proteomm

Versions

1.6.0-01.4.0-01.2.0-11.0.0-0

Depends
Required By

Installation

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

conda install bioconductor-proteomm

and update with:

conda update bioconductor-proteomm

or use the docker container:

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

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