recipe bioconductor-epitxdb

Storing and accessing epitranscriptomic information using the AnnotationDbi interface






EpiTxDb facilitates the storage of epitranscriptomic information. More specifically, it can keep track of modification identity, position, the enzyme for introducing it on the RNA, a specifier which determines the position on the RNA to be modified and the literature references each modification is associated with.

package bioconductor-epitxdb

(downloads) docker_bioconductor-epitxdb



depends bioconductor-annotationdbi:


depends bioconductor-biocfilecache:


depends bioconductor-biocgenerics:


depends bioconductor-biostrings:


depends bioconductor-genomeinfodb:


depends bioconductor-genomicfeatures:


depends bioconductor-genomicranges:


depends bioconductor-iranges:


depends bioconductor-modstrings:


depends bioconductor-s4vectors:


depends bioconductor-trnadbimport:


depends r-base:


depends r-curl:

depends r-dbi:

depends r-httr:

depends r-rsqlite:

depends r-xml2:



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-epitxdb

and update with::

   mamba update bioconductor-epitxdb

To create a new environment, run:

mamba create --name myenvname bioconductor-epitxdb

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

Download stats