recipe nextclade2

Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement

Homepage:

https://github.com/nextstrain/nextclade

Documentation:

https://docs.nextstrain.org/projects/nextclade/en/stable/

License:

MIT / MIT

Recipe:

/nextclade2/meta.yaml

Links:

doi: 10.21105/joss.03773

package nextclade2

(downloads) docker_nextclade2

versions:

2.14.0-2,  2.14.0-1,  2.14.0-0

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 nextclade2

and update with::

   mamba update nextclade2

To create a new environment, run:

mamba create --name myenvname nextclade2

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/nextclade2:<tag>

(see `nextclade2/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/nextclade2/README.html)