:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'hicap' .. highlight: bash hicap ===== .. conda:recipe:: hicap :replaces_section_title: :noindex: In silico typing of the H. influenzae capsule locus :homepage: https://github.com/scwatts/hicap :license: GPL / GPL-3.0 :recipe: /`hicap `_/`meta.yaml `_ :links: doi: :doi:`10.1128/JCM.00190-19` .. conda:package:: hicap |downloads_hicap| |docker_hicap| :versions: ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0.0-0`` :depends biopython: ``1.72`` :depends blast: ``>=2.2.28`` :depends prodigal: ``>=2.6.1`` :depends python: ``>=3.6`` :depends reportlab: ``3.4.0`` :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 hicap and update with:: mamba update hicap To create a new environment, run:: mamba create --name myenvname hicap 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/hicap: (see `hicap/tags`_ for valid values for ````) .. |downloads_hicap| image:: https://img.shields.io/conda/dn/bioconda/hicap.svg?style=flat :target: https://anaconda.org/bioconda/hicap :alt: (downloads) .. |docker_hicap| image:: https://quay.io/repository/biocontainers/hicap/status :target: https://quay.io/repository/biocontainers/hicap .. _`hicap/tags`: https://quay.io/repository/biocontainers/hicap?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/hicap/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/hicap/README.html