recipe takeabreak

tool that can detect inversion breakpoints directly from raw NGS reads, without the need of any reference genome and without de novo assembling the genomes

Homepage:

https://colibread.inria.fr/software/takeabreak/

License:

GNU Affero General Public License

Recipe:

/takeabreak/meta.yaml

Links:

biotools: takeabreak, doi: 10.1007/978-3-319-07953-0_10

package takeabreak

versions:

1.1.2-7,  1.1.2-6,  1.1.2-5,  1.1.2-4,  1.1.2-3,  1.1.2-2,  1.1.2-1,  1.1.2-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends zlib:

requirements:

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 takeabreak

and update with::

   mamba update takeabreak

To create a new environment, run:

mamba create --name myenvname takeabreak

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/takeabreak:<tag>

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

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