recipe qtlseq

QTL-seq: pipeline to identify causative mutations responsible for a phenotype

Homepage:

https://github.com/YuSugihara/QTL-seq

License:

GPL / GPL-3.0-or-later

Recipe:

/qtlseq/meta.yaml

Links:

biotools: qtlseq, doi: 10.1111/tpj.12105

package qtlseq

versions:

2.2.4-0,  2.2.3-0,  2.2.2-0,  2.2.0-1,  2.2.0-0,  2.1.2-0,  2.1.1-0,  2.1.0-0,  2.0.7-0, 

2.2.4-0,  2.2.3-0,  2.2.2-0,  2.2.0-1,  2.2.0-0,  2.1.2-0,  2.1.1-0,  2.1.0-0,  2.0.7-0,  2.0.6-0,  2.0.5-0,  2.0.4-0,  2.0.3-0,  2.0.2-0,  2.0.1-0,  2.0.0-0

depends bcftools:

>=1.7

depends bwa:

depends htslib:

depends matplotlib-base:

depends numpy:

depends pandas:

depends python:

>=3.5

depends samtools:

>=1.7

depends seaborn:

depends snpeff:

depends trimmomatic:

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 qtlseq

and update with::

   mamba update qtlseq

To create a new environment, run:

mamba create --name myenvname qtlseq

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/qtlseq:<tag>

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

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