recipe apscale

Advanced Pipeline for Simple yet Comprehensive AnaLysEs of DNA metabarcoding data

Homepage:

https://github.com/DominikBuchner/apscale

License:

MIT / MIT

Recipe:

/apscale/meta.yaml

package apscale

versions:

2.0.3-0,  2.0.2-0,  2.0.0-0,  1.7.1-0,  1.6.3-0,  1.5.5-0

depends biopython:

>=1.78

depends cutadapt:

>=3.5

depends demultiplexer:

>=1.1.0

depends fastparquet:

>=0.8.0

depends joblib:

>=1.0.0

depends openpyxl:

>=3.0.6

depends pandas:

>=1.2.1

depends psutil:

>=5.8.0

depends pyarrow:

>=7.0.0

depends python:

>=3.7

depends tqdm:

>=4.56.0

depends vsearch:

>=2.21,<3

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 apscale

and update with::

   mamba update apscale

To create a new environment, run:

mamba create --name myenvname apscale

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/apscale:<tag>

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

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