recipe lightassembler

Lightweight assembly algorithm designed to be executed on a desktop machine. It uses a pair of cache oblivious Bloom filters, one holding a uniform sample of g-spaced sequenced k-mers and the other holding k-mers classified as likely correct, using a simple statistical test.

Homepage:

https://github.com/SaraEl-Metwally/LightAssembler

License:

GPL

Recipe:

/lightassembler/meta.yaml

Links:

biotools: LightAssembler, doi: 10.1093/bioinformatics/btw470

package lightassembler

(downloads) docker_lightassembler

versions:

1.0-5,  1.0-4,  1.0-3,  1.0-2,  1.0-1,  1.0-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libtool:

depends libzlib:

>=1.2.13,<1.3.0a0

depends zlib:

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 lightassembler

and update with::

   mamba update lightassembler

To create a new environment, run:

mamba create --name myenvname lightassembler

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/lightassembler:<tag>

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