recipe amplicon_coverage_plot

Generate an amplicon coverage plot






generate an interactive barplot given amplicon info in bed/bedpe format and coverage information in cov/bam file.

package amplicon_coverage_plot

(downloads) docker_amplicon_coverage_plot



depends numpy:


depends plotly:


depends pysam:


depends python:




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 amplicon_coverage_plot

and update with::

   mamba update amplicon_coverage_plot

To create a new environment, run:

mamba create --name myenvname amplicon_coverage_plot

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

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