:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'tximport-scripts' .. highlight: bash tximport-scripts ================ .. conda:recipe:: tximport-scripts :replaces_section_title: :noindex: A set of wrappers for individual components of the tximport package. Functions R packages are hard to call when building workflows outside of R\, so this package adds a set of simple wrappers with robust argument parsing. Intermediate steps are currently mainly serialized R objects\, but the ultimate objective is to have language\-agnostic intermediate formats allowing composite workflows using a variety of software packages. :homepage: https://github.com/ebi-gene-expression-group/tximport-scripts :license: GPL / GPL-3 :recipe: /`tximport-scripts `_/`meta.yaml `_ .. conda:package:: tximport-scripts |downloads_tximport-scripts| |docker_tximport-scripts| :versions: ``0.0.1-1``,  ``0.0.1-0`` :depends bioconductor-dropletutils: :depends bioconductor-tximport: ``1.10.*`` :depends r-optparse: :depends r-workflowscriptscommon: :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 tximport-scripts and update with:: mamba update tximport-scripts To create a new environment, run:: mamba create --name myenvname tximport-scripts 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/tximport-scripts: (see `tximport-scripts/tags`_ for valid values for ````) .. |downloads_tximport-scripts| image:: https://img.shields.io/conda/dn/bioconda/tximport-scripts.svg?style=flat :target: https://anaconda.org/bioconda/tximport-scripts :alt: (downloads) .. |docker_tximport-scripts| image:: https://quay.io/repository/biocontainers/tximport-scripts/status :target: https://quay.io/repository/biocontainers/tximport-scripts .. _`tximport-scripts/tags`: https://quay.io/repository/biocontainers/tximport-scripts?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/tximport-scripts/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/tximport-scripts/README.html