recipe architeuthis

Tool to analyze and summarize data for Kraken.

Homepage:

https://github.com/cdiener/architeuthis

Developer docs:

https://github.com/cdiener/architeuthis.git

License:

Apache-2.0

Recipe:

/architeuthis/meta.yaml

architeuthis is a fast standalone command to supplement the Kraken suite of software tools such like Kraken2, KrakenUniq, and Bracken. I saw myself repeatedly rewriting the same code in my pipelines when dealing with Kraken output, like merging files or maninpulating lineage annotations. It also adds some functionality to dive deeper into the individual k-mer classifications for reads.

package architeuthis

(downloads) docker_architeuthis

versions:

0.3.1-0,  0.3.0-1,  0.3.0-0,  0.2.1-0

depends taxonkit:

>=0.16.0

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 architeuthis

and update with::

   mamba update architeuthis

To create a new environment, run:

mamba create --name myenvname architeuthis

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/architeuthis:<tag>

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

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Link to this page

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