recipe piranha-polio

Poliovirus Investigation Resource Automating Nanopore Haplotype Analysis



GPL3 / GPL-3.0-only



package piranha-polio

(downloads) docker_piranha-polio



depends bcftools:


depends biopython:

depends coreutils:


depends mafft:

depends mako:


depends medaka:


depends minimap2:


depends numpy:


depends pandas:

depends pysam:

depends python:


depends samtools:


depends snakemake-minimal:

depends snipit:

depends tabix:




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 piranha-polio

and update with::

   mamba update piranha-polio

To create a new environment, run:

mamba create --name myenvname piranha-polio

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<tag>

(see `piranha-polio/tags`_ for valid values for ``<tag>``)

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