recipe drep

De-replication of microbial genomes assembled from multiple samples

Homepage:

https://github.com/MrOlm/drep

Documentation:

https://drep.readthedocs.io/en/latest/

License:

MIT / MIT

Recipe:

/drep/meta.yaml

package drep

(downloads) docker_drep

versions:
3.4.5-03.4.4-03.4.3-03.4.2-03.4.1-03.4.0-03.3.1-03.3.0-03.2.2-0

3.4.5-03.4.4-03.4.3-03.4.2-03.4.1-03.4.0-03.3.1-03.3.0-03.2.2-03.2.1-03.2.0-03.1.1-03.1.0-03.0.1-03.0.0-23.0.0-13.0.0-02.6.2-02.6.1-02.6.0-02.5.4-02.5.3-02.5.2-02.5.1-02.5.0-02.4.2-02.4.1-02.4.0-12.4.0-02.3.2-12.3.2-02.2.3-12.2.3-02.0.5-22.0.5-0

depends biopython:

depends fastani:

depends mash:

depends matplotlib-base:

depends mummer4:

depends numpy:

depends pandas:

depends prodigal:

depends python:

>3

depends scikit-learn:

depends seaborn:

requirements:

Installation

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 drep

and update with::

   mamba update drep

To create a new environment, run:

mamba create --name myenvname drep

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 quay.io/biocontainers/drep:<tag>

(see `drep/tags`_ for valid values for ``<tag>``)

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