recipe phyloblitz

Rapid SSU rRNA marker gene screening of long read metagenomes.

Homepage:

https://github.com/kbseah/phyloblitz

Documentation:

https://github.com/kbseah/phyloblitz#readme

License:

MIT / MIT

Recipe:

/phyloblitz/meta.yaml

package phyloblitz

versions:

0.2.0-0

depends isonclust3:

>=0.3.0,<0.4

depends matplotlib-base:

>=3.10.8,<4

depends minimap2:

>=2.30,<3

depends mistune:

>=3.1.4,<4

depends numpy:

>=2.3.5,<3

depends oxli:

>=0.3.0,<0.4

depends pyfastx:

>=2.2.0,<3

depends pymarkovclustering:

>=0.1.1,<0.2

depends pysam:

>=0.23.3,<0.24

depends python:

>=3.10,<3.14

depends rich-click:

>=1.9.4,<2

depends spoa:

>=4.1.5,<5

requirements:

additional platforms:

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 phyloblitz

and update with::

   mamba update phyloblitz

To create a new environment, run:

mamba create --name myenvname phyloblitz

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/phyloblitz:<tag>

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

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