recipe expansionhunterdenovo

ExpansionHunter Denovo (EHdn) is a suite of tools for detecting novel expansions of short tandem repeats (STRs).

Homepage:

https://github.com/Illumina/ExpansionHunterDenovo

License:

Apache License 2.0

Recipe:

/expansionhunterdenovo/meta.yaml

package expansionhunterdenovo

(downloads) docker_expansionhunterdenovo

versions:
0.9.0-9,  0.9.0-8,  0.9.0-7,  0.9.0-6,  0.9.0-5,  0.9.0-4,  0.9.0-3,  0.9.0-2,  0.9.0-1, 

0.9.0-9,  0.9.0-8,  0.9.0-7,  0.9.0-6,  0.9.0-5,  0.9.0-4,  0.9.0-3,  0.9.0-2,  0.9.0-1,  0.9.0-0

depends backports.lzma:

depends boost-cpp:

depends bzip2:

>=1.0.8,<2.0a0

depends cmake:

depends htslib:

>=1.21,<1.22.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends spdlog:

1.4.2.*

depends zlib:

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 expansionhunterdenovo

and update with::

   mamba update expansionhunterdenovo

To create a new environment, run:

mamba create --name myenvname expansionhunterdenovo

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/expansionhunterdenovo:<tag>

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