recipe svseq2

An improved approach for accurate and efficient calling of structural variations with low-coverage sequence data

Homepage:

https://sourceforge.net/projects/svseq2/

Documentation:

https://sites.google.com/site/jinzhangwebsite/svseq2

License:

PUBLIC-DOMAIN / CC-PDDC

Recipe:

/svseq2/meta.yaml

package svseq2

(downloads) docker_svseq2

versions:

2-0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends samtools:

>=0.1.19,<1.0a0

requirements:

additional platforms:
linux-aarch64

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 svseq2

and update with::

   mamba update svseq2

To create a new environment, run:

mamba create --name myenvname svseq2

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/svseq2:<tag>

(see `svseq2/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/svseq2/README.html)