recipe ebolaseq

Tool for downloading and analyzing Ebola virus sequences

Homepage:

https://github.com/DaanJansen94/ebolaseq

Documentation:

https://github.com/DaanJansen94/ebolaseq/blob/master/README.md

License:

GPL / GPL-3.0-or-later

Recipe:

/ebolaseq/meta.yaml

Ebolaseq is a command-line tool that simplifies the process of analyzing Ebola virus sequences. It automates the complete workflow from downloading sequences to creating phylogenetic trees.

package ebolaseq

(downloads) docker_ebolaseq

versions:

0.1.3-0

depends biopython:

>=1.80

depends iqtree:

depends mafft:

depends numpy:

>=1.20.0

depends python:

>=3.9

depends trimal:

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 ebolaseq

and update with::

   mamba update ebolaseq

To create a new environment, run:

mamba create --name myenvname ebolaseq

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/ebolaseq:<tag>

(see `ebolaseq/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/ebolaseq/README.html)