recipe xengsort

A fast xenograft read sorter based on space-efficient k-mer hashing

Homepage:

https://gitlab.com/genomeinformatics/xengsort

License:

MIT / MIT

Recipe:

/xengsort/meta.yaml

Links:

doi: 10.4230/LIPIcs.WABI.2020.4

package xengsort

versions:

2.0.8-0,  2.0.7-0,  2.0.5-0,  2.0.3-0,  2.0.2-0,  2.0.1-0,  2.0.0-0,  1.5.0.3-0

depends jsonargparse:

depends numba:

>=0.56

depends numpy:

>=1.22

depends pytest:

depends python:

>=3.12

depends pyyaml:

depends zarr:

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 xengsort

and update with::

   mamba update xengsort

To create a new environment, run:

mamba create --name myenvname xengsort

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/xengsort:<tag>

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

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