recipe refseq_masher

refseq_masher finds what NCBI RefSeq genomes match or are contained within your sequence data using Mash



Apache / Apache 2.0



package refseq_masher

(downloads) docker_refseq_masher



depends click:

depends mash:


depends numpy:


depends pandas:


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 refseq_masher

and update with::

   mamba update refseq_masher

To create a new environment, run:

mamba create --name myenvname refseq_masher

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

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