recipe psqtl

A collection of Python scripts to predict QTLs using per-sample sequencing.

Homepage:

https://github.com/zkstewart/psQTL

Documentation:

https://github.com/zkstewart/psQTL/wiki

License:

GPL / GPL-3

Recipe:

/psqtl/meta.yaml

package psqtl

versions:

1.3.7-0

depends bcftools:

depends bioconductor-biocparallel:

depends bioconductor-mixomics:

>=6.26.0

depends biopython:

depends matplotlib-base:

depends ncls:

>=0.0.68

depends numpy:

depends pandas:

depends pycirclize:

depends python:

>=3.11,<=3.13

depends qt6-wayland:

depends r-argparser:

depends r-base:

>=4.3.0

depends r-biocmanager:

depends r-dplyr:

depends r-stringr:

depends samtools:

depends vt:

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 psqtl

and update with::

   mamba update psqtl

To create a new environment, run:

mamba create --name myenvname psqtl

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/psqtl:<tag>

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

Download stats

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/psqtl/README.html)