:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'gs-tama' .. highlight: bash gs-tama ======= .. conda:recipe:: gs-tama :replaces_section_title: :noindex: Gene\-Switch Transcriptome Annotation by Modular Algorithms :homepage: https://github.com/sguizard/gs-tama :license: GPL-3.0 License :recipe: /`gs-tama `_/`meta.yaml `_ .. conda:package:: gs-tama |downloads_gs-tama| |docker_gs-tama| :versions: ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0-0`` :depends bedtools: ``>=2.30.0`` :depends biopython: ``>=1.76`` :depends blast: ``>=2.11.0`` :depends pysam: ``>=0.16.0.1`` :depends python: ``2.7.*`` :depends samtools: ``>=1.12`` :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 gs-tama and update with:: mamba update gs-tama To create a new environment, run:: mamba create --name myenvname gs-tama 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/gs-tama: (see `gs-tama/tags`_ for valid values for ````) .. |downloads_gs-tama| image:: https://img.shields.io/conda/dn/bioconda/gs-tama.svg?style=flat :target: https://anaconda.org/bioconda/gs-tama :alt: (downloads) .. |docker_gs-tama| image:: https://quay.io/repository/biocontainers/gs-tama/status :target: https://quay.io/repository/biocontainers/gs-tama .. _`gs-tama/tags`: https://quay.io/repository/biocontainers/gs-tama?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/gs-tama/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/gs-tama/README.html