recipe strainge

Strain Genome Explorer: a tool suite for tracking and characterizing low-abundance strains.

Homepage:

https://github.com/broadinstitute/strainge

License:

BSD / BSD-3-Clause

Recipe:

/strainge/meta.yaml

package strainge

versions:

1.3.9-0,  1.3.8-0,  1.3.7-1,  1.3.7-0,  1.3.3-2,  1.3.3-1,  1.3.3-0,  1.3.2-0,  1.3.1-0, 

1.3.9-0,  1.3.8-0,  1.3.7-1,  1.3.7-0,  1.3.3-2,  1.3.3-1,  1.3.3-0,  1.3.2-0,  1.3.1-0,  1.3-0,  1.2-1,  1.2-0

depends h5py:

depends intervaltree:

depends libgcc:

>=12

depends libstdcxx:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends matplotlib-base:

depends numpy:

>=1.22.4,<2.0a0

depends pysam:

>=0.10

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends scikit-bio:

>=0.5.8

depends scikit-learn:

>=0.24

depends scipy:

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 strainge

and update with::

   mamba update strainge

To create a new environment, run:

mamba create --name myenvname strainge

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/strainge:<tag>

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

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Render an badge with the following MarkDown:

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