recipe qcat

Qcat is Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.

Homepage:

https://github.com/nanoporetech/qcat

License:

Mozilla Public License Version 2.0

Recipe:

/qcat/meta.yaml

package qcat

versions:

1.1.0-1,  1.1.0-0,  1.0.7-0,  1.0.1-0,  1.0.0-0

depends biopython:

depends mappy:

depends pandas:

depends parasail-python:

depends pysam:

depends python:

depends pyyaml:

depends six:

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 qcat

and update with::

   mamba update qcat

To create a new environment, run:

mamba create --name myenvname qcat

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/qcat:<tag>

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

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Link to this page

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