recipe maskrc-svg

Masks recombinant regions in an alignment based on ClonalFrameML or Gubbins output Option to draw SVG of recombinant regions.






package maskrc-svg

(downloads) docker_maskrc-svg



depends bcbio-gff:

depends biopython:

depends ete3:

depends python:

depends svgwrite:



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 maskrc-svg

and update with::

   mamba update maskrc-svg

To create a new environment, run:

mamba create --name myenvname maskrc-svg

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 `maskrc-svg/tags`_ for valid values for ``<tag>``)

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