:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'aquila_stlfr' .. highlight: bash aquila_stlfr ============ .. conda:recipe:: aquila_stlfr :replaces_section_title: :noindex: Diploid assembly and variants calling for stLFR and hybrid assembler for both linked\-reads. :homepage: https://github.com/maiziex/Aquila_stLFR :license: MIT :recipe: /`aquila_stlfr `_/`meta.yaml `_ .. conda:package:: aquila_stlfr |downloads_aquila_stlfr| |docker_aquila_stlfr| :versions: ``1.2.11-0``,  ``1.2.10-0``,  ``1.2.9-0``,  ``1.2.8-0``,  ``1.2.4-0``,  ``1.2.1-0``,  ``1.1-2``,  ``1.1-0`` :depends minimap2: :depends numpy: :depends pysam: :depends python: ``>=3`` :depends samtools: :depends scipy: :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 aquila_stlfr and update with:: mamba update aquila_stlfr To create a new environment, run:: mamba create --name myenvname aquila_stlfr 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/aquila_stlfr: (see `aquila_stlfr/tags`_ for valid values for ````) .. |downloads_aquila_stlfr| image:: https://img.shields.io/conda/dn/bioconda/aquila_stlfr.svg?style=flat :target: https://anaconda.org/bioconda/aquila_stlfr :alt: (downloads) .. |docker_aquila_stlfr| image:: https://quay.io/repository/biocontainers/aquila_stlfr/status :target: https://quay.io/repository/biocontainers/aquila_stlfr .. _`aquila_stlfr/tags`: https://quay.io/repository/biocontainers/aquila_stlfr?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/aquila_stlfr/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/aquila_stlfr/README.html