recipe bioconductor-deltacapturec

This Package Discovers Meso-scale Chromatin Remodeling from 3C Data






This package discovers meso-scale chromatin remodelling from 3C data. 3C data is local in nature. It givens interaction counts between restriction enzyme digestion fragments and a preferred 'viewpoint' region. By binning this data and using permutation testing, this package can test whether there are statistically significant changes in the interaction counts between the data from two cell types or two treatments.

package bioconductor-deltacapturec

(downloads) docker_bioconductor-deltacapturec



depends bioconductor-deseq2:


depends bioconductor-genomicranges:


depends bioconductor-iranges:


depends bioconductor-summarizedexperiment:


depends r-base:


depends r-ggplot2:

depends r-tictoc:



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-deltacapturec

and update with::

   mamba update bioconductor-deltacapturec

To create a new environment, run:

mamba create --name myenvname bioconductor-deltacapturec

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

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