recipe graphbin2

GraphBin2: Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs

Homepage:

https://github.com/metagentools/GraphBin2

Documentation:

https://graphbin2.readthedocs.io/

License:

BSD-3

Recipe:

/graphbin2/meta.yaml

Links:

doi: 10.1186/s13015-021-00185-6

GraphBin2 is a metagenomic contig bin-refinement tool that makes use of assembly graphs and can assign contigs to multiple bins.

package graphbin2

versions:

1.3.3-0,  1.3.2-0,  1.3.1-0

depends cairocffi:

depends click:

depends cogent3:

depends python:

>=3.9

depends python-igraph:

depends scipy:

depends tqdm:

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 graphbin2

and update with::

   mamba update graphbin2

To create a new environment, run:

mamba create --name myenvname graphbin2

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/graphbin2:<tag>

(see `graphbin2/tags`_ for valid values for ``<tag>``)

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