recipe vphaser2

V-Phaser 2 is a tool to call variants in genetically heterogeneous populations from ultra-deep sequence data.

Homepage:

https://www.broadinstitute.org/scientific-community/science/projects/viral-genomics/v-phaser-2

Documentation:

https://www.broadinstitute.org/viral-genomics/v-phaser-2

Developer docs:

https://github.com/broadinstitute/v-phaser2

License:

Single user license for academic non-commercial research purposes only

Recipe:

/vphaser2/meta.yaml

Links:

doi: 10.1186/1471-2164-14-674

package vphaser2

(downloads) docker_vphaser2

versions:
2.0-16,  2.0-15,  2.0-14,  2.0-13,  2.0-12,  2.0-11,  2.0-10,  2.0-9,  2.0-8, 

2.0-16,  2.0-15,  2.0-14,  2.0-13,  2.0-12,  2.0-11,  2.0-10,  2.0-9,  2.0-8,  2.0-7,  2.0-6,  2.0-5,  2.0-4,  2.0-3,  2.0-1,  2.0-0

depends _openmp_mutex:

>=4.5

depends bamtools:

>=2.5.3,<3.0a0

depends boost-cpp:

depends libgcc:

>=13

depends libgomp:

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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 vphaser2

and update with::

   mamba update vphaser2

To create a new environment, run:

mamba create --name myenvname vphaser2

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/vphaser2:<tag>

(see `vphaser2/tags`_ for valid values for ``<tag>``)

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