recipe bioconductor-intramirexplorer

Predicting Targets for Drosophila Intragenic miRNAs






Intra-miR-ExploreR, an integrative miRNA target prediction bioinformatics tool, identifies targets combining expression and biophysical interactions of a given microRNA (miR). Using the tool, we have identified targets for 92 intragenic miRs in D. melanogaster, using available microarray expression data, from Affymetrix 1 and Affymetrix2 microarray array platforms, providing a global perspective of intragenic miR targets in Drosophila. Predicted targets are grouped according to biological functions using the DAVID Gene Ontology tool and are ranked based on a biologically relevant scoring system, enabling the user to identify functionally relevant targets for a given miR.

package bioconductor-intramirexplorer

(downloads) docker_bioconductor-intramirexplorer



depends bioconductor-fgnet:


depends r-base:


depends r-igraph:


depends r-knitr:




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-intramirexplorer

and update with::

   mamba update bioconductor-intramirexplorer

To create a new environment, run:

mamba create --name myenvname bioconductor-intramirexplorer

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-intramirexplorer/tags`_ for valid values for ``<tag>``)

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