recipe netsyn

NetSyn is a tool to detect conserved genomic contexts (i.e. synteny conservation) among a list of protein targets.

Homepage:

https://github.com/labgem/netsyn

License:

OTHER / CeCiLL 2.1

Recipe:

/netsyn/meta.yaml

package netsyn

versions:

0.1.2-0,  0.1.1-0

depends biopython:

depends jsonschema:

depends markov_clustering:

depends mmseqs2:

>=9.d36de

depends networkx:

>=2.8

depends python:

>=3.8

depends python-igraph:

depends pyyaml:

depends requests:

depends urllib3:

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 netsyn

and update with::

   mamba update netsyn

To create a new environment, run:

mamba create --name myenvname netsyn

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/netsyn:<tag>

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

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Link to this page

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