recipe soapdenovo2

SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes.

Homepage:

http://soap.genomics.org.cn/soapdenovo.html

License:

GPL

Recipe:

/soapdenovo2/meta.yaml

package soapdenovo2

(downloads) docker_soapdenovo2

versions:

2.40-2,  2.40-1,  2.40-0

depends samtools:

0.1.19.*

depends zlib:

>=1.2.11,<1.3.0a0

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 soapdenovo2

and update with::

   mamba update soapdenovo2

To create a new environment, run:

mamba create --name myenvname soapdenovo2

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/soapdenovo2:<tag>

(see `soapdenovo2/tags`_ for valid values for ``<tag>``)

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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/soapdenovo2/README.html)