recipe annotsv

Annotation and Ranking of Structural Variation



GPL3 / GPL-3.0-only



package annotsv

(downloads) docker_annotsv



depends bcftools:


depends bedtools:


depends coreutils:

depends curl:

depends natsort:


depends openjdk:


depends pandas:


depends pyfaidx:


depends python:


depends tk:


depends tqdm:


depends unzip:



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 annotsv

and update with::

   mamba update annotsv

To create a new environment, run:

mamba create --name myenvname annotsv

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

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