recipe toulligqc

A post sequencing QC tool for Oxford Nanopore sequencers.

Homepage:

https://github.com/GenomicParisCentre/toulligQC

Documentation:

https://github.com/GenomiqueENS/toulligQC/blob/v2.7.1/README.md

License:

GPL3 / GPL-3.0-or-later

Recipe:

/toulligqc/meta.yaml

Links:

biotools: ToulligQC

package toulligqc

versions:

2.7.1-0,  2.5.6-0,  2.5.5-0,  2.5.4-0,  2.5.3-0,  2.5.2-0,  2.5-0,  2.4-0,  2.3-0, 

2.7.1-0,  2.5.6-0,  2.5.5-0,  2.5.4-0,  2.5.3-0,  2.5.2-0,  2.5-0,  2.4-0,  2.3-0,  2.2.3-0,  2.2.2-0,  2.2.1-0,  2.2-0,  2.1.1-0,  2.1-0,  2.0.1-0,  1.3-0,  1.2-0,  1.1-0,  1.0-0,  0.10-0,  0.9-2,  0.9-0,  0.5-0

depends h5py:

>=3.10.0

depends matplotlib-base:

>=3.6.3

depends numpy:

>=1.26.4

depends pandas:

>=2.1.4

depends plotly:

>=5.15.0

depends pod5:

>=0.3.15

depends pysam:

>=0.22.0

depends python:

>=3.11

depends scikit-learn:

>=1.4.1

depends scipy:

>=1.11.4

depends tqdm:

>=4.66.2

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 toulligqc

and update with::

   mamba update toulligqc

To create a new environment, run:

mamba create --name myenvname toulligqc

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/toulligqc:<tag>

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

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