recipe sequenza-utils

Analysis of cancer sequencing samples, utilities for the R package sequenza

Homepage:

http://sequenza-utils.readthedocs.org

License:

GPL3 / GNU General Public v3 (GPLv3)

Recipe:

/sequenza-utils/meta.yaml

package sequenza-utils

versions:

3.0.0-7,  3.0.0-6,  3.0.0-5,  3.0.0-4,  3.0.0-3,  3.0.0-2,  3.0.0-1,  3.0.0-0,  2.1.9999b0-0

depends htslib:

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends samtools:

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 sequenza-utils

and update with::

   mamba update sequenza-utils

To create a new environment, run:

mamba create --name myenvname sequenza-utils

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/sequenza-utils:<tag>

(see `sequenza-utils/tags`_ for valid values for ``<tag>``)

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