recipe bioconductor-mlp

Mean Log P Analysis







biotools: mlp, doi: 10.1007/978-3-642-24007-2_12

Pathway analysis based on p-values associated to genes from a genes expression analysis of interest. Utility functions enable to extract pathways from the Gene Ontology Biological Process (GOBP), Molecular Function (GOMF) and Cellular Component (GOCC), Kyoto Encyclopedia of Genes of Genomes (KEGG) and Reactome databases. Methodology, and helper functions to display the results as a table, barplot of pathway significance, Gene Ontology graph and pathway significance are available.

package bioconductor-mlp

(downloads) docker_bioconductor-mlp



depends bioconductor-annotationdbi:


depends r-base:


depends r-gplots:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-mlp

and update with::

   mamba update bioconductor-mlp

To create a new environment, run:

mamba create --name myenvname bioconductor-mlp

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bioconductor-mlp/tags`_ for valid values for ``<tag>``)

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