recipe kegalign-full

KegAlign: A Scalable GPU-Based Whole Genome Aligner

Homepage:

https://github.com/galaxyproject/KegAlign

Documentation:

https://github.com/galaxyproject/KegAlign/blob/main/README.md

License:

MIT / MIT

Recipe:

/kegalign-full/meta.yaml

KegAlign is a Scalable GPU System for Pairwise Whole Genome Alignments based on LASTZ's seed-filter-extend paradigm.

package kegalign-full

(downloads) docker_kegalign-full

versions:

0.1.2.7-0

depends kegalign:

0.1.2.7.*

depends lastz:

depends mbuffer:

depends samtools:

depends ucsc-fatotwobit:

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 kegalign-full

and update with::

   mamba update kegalign-full

To create a new environment, run:

mamba create --name myenvname kegalign-full

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/kegalign-full:<tag>

(see `kegalign-full/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda 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/kegalign-full/README.html)