recipe minialign

Fast and accurate alignment tool for PacBio and Nanopore long reads.

Homepage:

https://github.com/ocxtal/minialign

License:

MIT

Recipe:

/minialign/meta.yaml

Minialign is a little bit fast and moderately accurate nucleotide sequence alignment tool designed for PacBio and Nanopore long reads. It is built on three key algorithms, minimizer-based index of the minimap overlapper, array-based seed chaining, and SIMD-parallel Smith-Waterman-Gotoh extension.

package minialign

(downloads) docker_minialign

versions:

0.5.3-2,  0.5.3-1,  0.5.3-0,  0.5.2-0,  0.4.2-1,  0.4.2-0,  0.4.0-0,  0.3.1-0

depends zlib:

>=1.2.11,<1.3.0a0

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 minialign

and update with::

   mamba update minialign

To create a new environment, run:

mamba create --name myenvname minialign

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/minialign:<tag>

(see `minialign/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/minialign/README.html)