recipe sv2

Support Vector Structural Variation Genotyper






package sv2

(downloads) docker_sv2


depends bedtools:

depends libgcc-ng:


depends numpy:

depends pandas:

depends pybedtools:

depends pysam:


depends python:


depends python-wget:

depends python_abi:

2.7.* *_cp27mu

depends scikit-learn:


depends wget:



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 sv2

and update with::

   mamba update sv2

To create a new environment, run:

mamba create --name myenvname sv2

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 `sv2/tags`_ for valid values for ``<tag>``)

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