- recipe savage
SAVAGE (Strain Aware VirAl GEnome assembly) reconstructs individual (viral) haplotypes from a mixed sample.
- package savage¶
- depends _openmp_mutex:
- depends boost-cpp:
- depends bwa:
- depends kallisto:
- depends libgcc-ng:
- depends libstdcxx-ng:
- depends python:
- depends python_abi:
- depends rust-overlaps:
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 savage and update with:: mamba update savage
To create a new environment, run:
mamba create --name myenvname savage
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/savage:<tag> (see `savage/tags`_ for valid values for ``<tag>``)