recipe dupre

Duplicate rate estimation using linear programming and the hypergeometric distribution






package dupre

(downloads) docker_dupre



depends h5py:

depends numpy:

depends pulp:

depends pysam:

depends python:


depends scipy:



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 dupre

and update with::

   mamba update dupre

To create a new environment, run:

mamba create --name myenvname dupre

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 `dupre/tags`_ for valid values for ``<tag>``)

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