- recipe octopus
Octopus is a mapping-based variant caller that implements several calling models within a unified haplotype-aware framework.
- Homepage:
- License:
MIT / MIT
- Recipe:
- package octopus¶
- versions:
0.7.4-2,0.7.4-1,0.7.4-0,0.6.3b-3,0.6.3b-2,0.6.3b-1,0.6.3b-0,0.5.2b-2,0.5.2b-1,0.7.4-2,0.7.4-1,0.7.4-0,0.6.3b-3,0.6.3b-2,0.6.3b-1,0.6.3b-0,0.5.2b-2,0.5.2b-1,0.5.2b-0,0.5.1b-0,0.5.0b-0,0.4.1a-1,0.4.1a-0,0.3.3a-1,0.3.3a-0- depends boost-cpp:
>=1.74.0,<1.74.1.0a0- depends bzip2:
>=1.0.8,<2.0a0- depends gmp:
>=6.2.1,<7.0a0- depends htslib:
>=1.14,<1.22.0a0- depends icu:
>=69.1,<70.0a0- depends libgcc-ng:
>=10.3.0- depends libstdcxx-ng:
>=10.3.0- depends libzlib:
>=1.2.11,<1.3.0a0- depends xz:
>=5.2.5,<5.3.0a0- depends zlib:
>=1.2.11,<1.3.0a0- requirements:
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 octopus and update with:: mamba update octopus
To create a new environment, run:
mamba create --name myenvname octopus
with
myenvnamebeing 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/octopus:<tag> (see `octopus/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/octopus/README.html)
