recipe atol-qc-raw-ont

Run read QC on ONT reads.

Homepage:

https://github.com/TomHarrop/atol-qc-raw-ont

License:

GPL3 / GPL-3.0-or-later

Recipe:

/atol-qc-raw-ont/meta.yaml

package atol-qc-raw-ont

versions:

0.1.2-0

depends bbmap:

<=38.95

depends filtlong:

>=0.3.1

depends gawk:

depends pandas:

>=2.3.3,<3

depends porechop:

>=0.2.4

depends python:

>=3.12,<3.13

depends snakemake:

>=9.11.6,<10

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 atol-qc-raw-ont

and update with::

   mamba update atol-qc-raw-ont

To create a new environment, run:

mamba create --name myenvname atol-qc-raw-ont

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/atol-qc-raw-ont:<tag>

(see `atol-qc-raw-ont/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/atol-qc-raw-ont/README.html)