:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'nanosim' .. highlight: bash nanosim ======= .. conda:recipe:: nanosim :replaces_section_title: :noindex: NanoSim is a fast and scalable read simulator for Nanopore sequencing data. :homepage: https://github.com/bcgsc/NanoSim :license: GPL-3.0 :recipe: /`nanosim `_/`meta.yaml `_ :links: doi: :doi:`10.1093/gigascience/gix010`, doi: :doi:`10.1093/gigascience/giaa061` .. conda:package:: nanosim |downloads_nanosim| |docker_nanosim| :versions: .. raw:: html
3.1.0-03.0.2-03.0.0-02.6.0-12.6.0-02.5.1-12.5.1-02.5.0-02.2.0-0 ``3.1.0-0``,  ``3.0.2-0``,  ``3.0.0-0``,  ``2.6.0-1``,  ``2.6.0-0``,  ``2.5.1-1``,  ``2.5.1-0``,  ``2.5.0-0``,  ``2.2.0-0``,  ``2.1.0-0``,  ``2.0.0-1``,  ``2.0.0-0``,  ``v1.3.0-0``,  ``v1.2.0-0``,  ``v1.0.1-1`` .. raw:: html
:depends genometools-genometools: :depends htseq: ``>=0.9.1`` :depends joblib: :depends last: :depends minimap2: :depends numpy: ``>=1.13.3`` :depends pybedtools: ``>=0.7.10`` :depends pysam: ``>=0.13`` :depends python: :depends samtools: :depends scikit-learn: ``>=0.20.0,<=0.22.1`` :depends scipy: ``>=1.0.0`` :depends six: ``>=1.10.0`` :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 nanosim and update with:: mamba update nanosim To create a new environment, run:: mamba create --name myenvname nanosim 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/nanosim: (see `nanosim/tags`_ for valid values for ````) .. |downloads_nanosim| image:: https://img.shields.io/conda/dn/bioconda/nanosim.svg?style=flat :target: https://anaconda.org/bioconda/nanosim :alt: (downloads) .. |docker_nanosim| image:: https://quay.io/repository/biocontainers/nanosim/status :target: https://quay.io/repository/biocontainers/nanosim .. _`nanosim/tags`: https://quay.io/repository/biocontainers/nanosim?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/nanosim/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/nanosim/README.html