:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'meraculous' .. highlight: bash meraculous ========== .. conda:recipe:: meraculous :replaces_section_title: :noindex: Meraculous is a whole genome assembler for Next Generation Sequencing data\, geared for large genomes. It\'s hybrid k\-mer\/read\-based approach capitalizes on the high accuracy of Illumina sequence by eschewing an explicit error correction step which we argue to be redundant with the assembly process. Meraculous achieves high performance with large datasets by utilizing lightweight data structures and multi\-threaded parallelization\, allowing to assemble human\-sized genomes on a high\-cpu cluster in under a day. The process pipeline implements a highly transparent and portable model of job control and monitoring where different assembly stages can be executed and re\-executed separately or in unison on a wide variety of architectures. :homepage: https://jgi.doe.gov/data-and-tools/meraculous/ :license: GPLv3 :recipe: /`meraculous `_/`meta.yaml `_ :links: doi: :doi:`10.1371/journal.pone.0023501` .. conda:package:: meraculous |downloads_meraculous| |docker_meraculous| :versions: .. raw:: html
2.2.6-62.2.6-52.2.6-42.2.6-32.2.6-22.2.6-12.2.6-02.2.5.1.1.ga103cd6-02.2.5-0 ``2.2.6-6``,  ``2.2.6-5``,  ``2.2.6-4``,  ``2.2.6-3``,  ``2.2.6-2``,  ``2.2.6-1``,  ``2.2.6-0``,  ``2.2.5.1.1.ga103cd6-0``,  ``2.2.5-0``,  ``2.2.4-1``,  ``2.2.4-0`` .. raw:: html
:depends boost-cpp: ``>=1.78.0,<1.78.1.0a0`` :depends gnuplot: ``>=3.7`` :depends libgcc-ng: ``>=12`` :depends libgd: ``>=2.0`` :depends libgd: ``>=2.3.3,<2.4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends perl: ``>=5.32.1,<5.33.0a0 *_perl5`` :depends perl-log-log4perl: ``>=1.31`` :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`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 meraculous and update with:: mamba update meraculous To create a new environment, run:: mamba create --name myenvname meraculous 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/meraculous: (see `meraculous/tags`_ for valid values for ````) .. |downloads_meraculous| image:: https://img.shields.io/conda/dn/bioconda/meraculous.svg?style=flat :target: https://anaconda.org/bioconda/meraculous :alt: (downloads) .. |docker_meraculous| image:: https://quay.io/repository/biocontainers/meraculous/status :target: https://quay.io/repository/biocontainers/meraculous .. _`meraculous/tags`: https://quay.io/repository/biocontainers/meraculous?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html 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/meraculous/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/meraculous/README.html