recipe ntsynt

Detecting multi-genome synteny blocks using minimizer graph mapping

Homepage:

https://github.com/bcgsc/ntsynt

License:

GPL-3.0

Recipe:

/ntsynt/meta.yaml

package ntsynt

versions:

1.0.1-0,  1.0.0-1,  1.0.0-0

depends _openmp_mutex:

>=4.5

depends btllib:

<1.7.0

depends intervaltree:

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends ncls:

depends pybedtools:

depends python:

>=3.10,<3.11.0a0

depends python-igraph:

depends python_abi:

3.10.* *_cp310

depends samtools:

depends seqtk:

depends snakemake:

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 ntsynt

and update with::

   mamba update ntsynt

To create a new environment, run:

mamba create --name myenvname ntsynt

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/ntsynt:<tag>

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

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