recipe bioconductor-chipanalyser

ChIPanalyser: Predicting Transcription Factor Binding Sites






ChIPanalyser is a package to predict and understand TF binding by utilizing a statistical thermodynamic model. The model incorporates 4 main factors thought to drive TF binding: Chromatin State, Binding energy, Number of bound molecules and a scaling factor modulating TF binding affinity. Taken together, ChIPanalyser produces ChIP-like profiles that closely mimic the patterns seens in real ChIP-seq data.

package bioconductor-chipanalyser

(downloads) docker_bioconductor-chipanalyser



depends bioconductor-biostrings:


depends bioconductor-bsgenome:


depends bioconductor-genomeinfodb:


depends bioconductor-genomicranges:


depends bioconductor-iranges:


depends bioconductor-rtracklayer:


depends bioconductor-s4vectors:


depends r-base:


depends r-biocmanager:

depends r-rcolorbrewer:

depends r-rcpproll:

depends r-rocr:



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-chipanalyser

and update with::

   mamba update bioconductor-chipanalyser

To create a new environment, run:

mamba create --name myenvname bioconductor-chipanalyser

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

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