- recipe bioconductor-simpintlists
The package contains BioGRID interactions for various organisms in a simple format
GPL (>= 2)
The package contains BioGRID interactions for arabidopsis(thale cress), c.elegans, fruit fly, human, mouse, yeast( budding yeast ) and S.pombe (fission yeast) . Entrez ids, official names and unique ids can be used to find proteins. The format of interactions are lists. For each gene/protein, there is an entry in the list with "name" containing name of the gene/protein and "interactors" containing the list of genes/proteins interacting with it.
- package bioconductor-simpintlists¶
- depends bioconductor-data-packages:
- depends curl:
- depends r-base:
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-simpintlists and update with:: mamba update bioconductor-simpintlists
To create a new environment, run:
mamba create --name myenvname bioconductor-simpintlists
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).
Alternatively, use the docker container:
docker pull quay.io/biocontainers/bioconductor-simpintlists:<tag> (see `bioconductor-simpintlists/tags`_ for valid values for ``<tag>``)