recipe binspreader

BinSPreader is a tool for improving existing binning using assembly graph and other sources of connectivity information

Homepage:

https://cab.spbu.ru/software/binspreader/

License:

GPL2 / GPL-2.0-only

Recipe:

/binspreader/meta.yaml

Links:

biotools: binspreader, doi: 10.1016/j.isci.2022.104770

BinSPreader is a novel tool that attempts to refine metagenome-assembled genomes (MAGs) obtained from existing tools. BinSPreader exploits the assembly graph topology and other connectivity information, such as paired-end and Hi-C reads, to refine the existing binning, correct binning errors, propagate binning from longer contigs to shorter contigs and infer contigs belonging to multiple bins.

package binspreader

(downloads) docker_binspreader

versions:

3.16.0.dev-0

depends __glibc:

>=2.17,<3.0.a0

depends bzip2:

>=1.0.8,<2.0a0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends openmp:

depends sysroot_linux-64:

>=2.17

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 binspreader

and update with::

   mamba update binspreader

To create a new environment, run:

mamba create --name myenvname binspreader

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/binspreader:<tag>

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

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Link to this page

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