recipe genomesyn2

A Comparative Genomics Framework Integrating Synteny Visualization

Homepage:

https://github.com/banzhou59/GenomeSyn2

License:

MIT

Recipe:

/genomesyn2/meta.yaml

GenomeSyn2 is a flexible and high-performance framework for comparative genomics visualization, synteny construction, and multi-genome feature analysis. It supports multiple alignment engines (MUMmer, minimap2, BLASTp, Diamond, MMseqs2) and provides rich downstream visualization modules.

package genomesyn2

versions:

1.0.0-0

depends blast:

depends cairosvg:

depends diamond:

depends gffread:

depends minimap2:

depends mmseqs2:

depends mummer4:

depends perl:

>=5.32

depends perl-bioperl-core:

depends perl-svg:

depends python:

>=3.8

depends seqkit:

requirements:

additional platforms:

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 genomesyn2

and update with::

   mamba update genomesyn2

To create a new environment, run:

mamba create --name myenvname genomesyn2

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/genomesyn2:<tag>

(see `genomesyn2/tags`_ for valid values for ``<tag>``)

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