recipe svtk

Utilities for consolidating, filtering, resolving, and annotating structural variants.

Homepage:

https://github.com/talkowski-lab/svtk

License:

MIT / MIT

Recipe:

/svtk/meta.yaml

package svtk

versions:

0.0.20190615-6,  0.0.20190615-5,  0.0.20190615-4,  0.0.20190615-3,  0.0.20190615-2,  0.0.20190615-1,  0.0.20190615-0

depends boto3:

depends libgcc:

>=13

depends natsort:

depends numpy:

depends pandas:

depends pybedtools:

depends pysam:

>=0.11.2.2

depends pysam:

>=0.22.1,<0.23.0a0

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends scikit-learn:

requirements:

additional platforms:

Installation

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 svtk

and update with::

   mamba update svtk

To create a new environment, run:

mamba create --name myenvname svtk

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 quay.io/biocontainers/svtk:<tag>

(see `svtk/tags`_ for valid values for ``<tag>``)

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