:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'dirseq' .. highlight: bash dirseq ====== .. conda:recipe:: dirseq :replaces_section_title: :noindex: Work out whether RNAseq reads in general agree with the direction of the gene predicted. :homepage: https://github.com/wwood/dirseq :license: MIT / MIT :recipe: /`dirseq `_/`meta.yaml `_ :links: doi: :doi:`10.1038/s41586-018-0338-1` .. conda:package:: dirseq |downloads_dirseq| |docker_dirseq| :versions: ``0.4.3-0`` :depends bedtools: :depends ruby: ``2.4.*`` :depends samtools: :requirements: :additional platforms: .. 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 dirseq and update with:: mamba update dirseq To create a new environment, run:: mamba create --name myenvname dirseq 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/dirseq: (see `dirseq/tags`_ for valid values for ````) .. |downloads_dirseq| image:: https://img.shields.io/conda/dn/bioconda/dirseq.svg?style=flat :target: https://anaconda.org/bioconda/dirseq :alt: (downloads) .. |docker_dirseq| image:: https://quay.io/repository/biocontainers/dirseq/status :target: https://quay.io/repository/biocontainers/dirseq .. _`dirseq/tags`: https://quay.io/repository/biocontainers/dirseq?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/dirseq/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/dirseq/README.html