:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'alfred' .. highlight: bash alfred ====== .. conda:recipe:: alfred :replaces_section_title: :noindex: BAM alignment statistics\, feature counting and feature annotation :homepage: https://github.com/tobiasrausch/alfred :license: BSD / BSD-3-Clause :recipe: /`alfred `_/`meta.yaml `_ .. conda:package:: alfred |downloads_alfred| |docker_alfred| :versions: .. raw:: html
0.3.1-00.2.8-00.2.7-20.2.7-10.2.7-00.2.6-20.2.6-10.2.6-00.2.5-2 ``0.3.1-0``,  ``0.2.8-0``,  ``0.2.7-2``,  ``0.2.7-1``,  ``0.2.7-0``,  ``0.2.6-2``,  ``0.2.6-1``,  ``0.2.6-0``,  ``0.2.5-2``,  ``0.2.5-1``,  ``0.2.5-0``,  ``0.2.3-1``,  ``0.2.3-0``,  ``0.2.1-2``,  ``0.2.1-1``,  ``0.2.1-0``,  ``0.1.19-0``,  ``0.1.18-0``,  ``0.1.17-2``,  ``0.1.17-1``,  ``0.1.17-0``,  ``0.1.16-1``,  ``0.1.16-0``,  ``0.1.15-0``,  ``0.1.13-0``,  ``0.1.12-1``,  ``0.1.12-0``,  ``0.1.9-0``,  ``0.1.8-1``,  ``0.1.8-0``,  ``0.1.7-2``,  ``0.1.7-1``,  ``0.1.7-0``,  ``0.1.6-2``,  ``0.1.5-4``,  ``0.1.5-3``,  ``0.1.5-2``,  ``0.1.5-1``,  ``0.1.3-4``,  ``0.1.3-3``,  ``0.1.3-2``,  ``0.1.3-1``,  ``0.1.2-4``,  ``0.1.2-3``,  ``0.1.2-2``,  ``0.1.2-1`` .. raw:: html
:depends boost-cpp: ``>=1.78.0,<1.78.1.0a0`` :depends bzip2: ``>=1.0.8,<2.0a0`` :depends htslib: ``>=1.19.1,<1.20.0a0`` :depends libdeflate: ``>=1.18,<1.19.0a0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends libzlib: ``>=1.2.13,<1.3.0a0`` :depends zlib: :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 alfred and update with:: mamba update alfred To create a new environment, run:: mamba create --name myenvname alfred 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/alfred: (see `alfred/tags`_ for valid values for ````) .. |downloads_alfred| image:: https://img.shields.io/conda/dn/bioconda/alfred.svg?style=flat :target: https://anaconda.org/bioconda/alfred :alt: (downloads) .. |docker_alfred| image:: https://quay.io/repository/biocontainers/alfred/status :target: https://quay.io/repository/biocontainers/alfred .. _`alfred/tags`: https://quay.io/repository/biocontainers/alfred?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/alfred/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/alfred/README.html