recipe counterr

Counterr is a light-weight command line tool that computes errors in sequencing data by comparing the reads to a reference genome.






package counterr

(downloads) docker_counterr



depends matplotlib:


depends numpy:


depends pandas:


depends pysam:


depends python:

depends seaborn:




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 counterr

and update with::

   mamba update counterr

To create a new environment, run:

mamba create --name myenvname counterr

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

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