recipe hecatomb

Hecatomb: and end-to-end platform for viral metagenomics

Homepage:

https://github.com/shandley/hecatomb

Documentation:

https://hecatomb.readthedocs.io/en/latest/

License:

MIT

Recipe:

/hecatomb/meta.yaml

Hecatomb accelerates viral metagenomics research by assembling contigs and accurately identifying viruses from a range of sequencing data types.

package hecatomb

(downloads) docker_hecatomb

versions:
1.3.3-0,  1.3.2-0,  1.3.1-0,  1.3.0-0,  1.2.0-0,  1.1.0-0,  1.0.1-0,  1.0.0.beta.5-0,  1.0.0.beta.4-0, 

1.3.3-0,  1.3.2-0,  1.3.1-0,  1.3.0-0,  1.2.0-0,  1.1.0-0,  1.0.1-0,  1.0.0.beta.5-0,  1.0.0.beta.4-0,  1.0.0.beta.3-0,  1.0.0.beta.2-1,  1.0.0.beta.2-0

depends click:

>=8.1.3

depends metasnek:

>=0.0.7

depends pulp:

<2.8

depends python:

>=3.9,<=3.12

depends pyyaml:

>=6.0

depends snakemake:

>=7.14.0,<8

depends snaketool-utils:

>=0.0.4

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 hecatomb

and update with::

   mamba update hecatomb

To create a new environment, run:

mamba create --name myenvname hecatomb

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/hecatomb:<tag>

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