recipe shiver

SHIVER - Sequences from HIV Easily Reconstructed



GPL / GPL-3.0



package shiver

(downloads) docker_shiver



depends bc:

depends biopython:

depends blast:


depends mafft:

depends pandas:

depends pyfastaq:

depends python:


depends samtools:

depends six:

depends smalt:

depends trimmomatic:



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 shiver

and update with::

   mamba update shiver

To create a new environment, run:

mamba create --name myenvname shiver

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 `shiver/tags`_ for valid values for ``<tag>``)

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