:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'cdna_cupcake' .. highlight: bash cdna_cupcake ============ .. conda:recipe:: cdna_cupcake :replaces_section_title: :noindex: cDNA\_Cupcake is a miscellaneous collection of Python and R scripts used for analyzing sequencing data. :homepage: https://github.com/Magdoll/cDNA_Cupcake :license: BSD / BSD-3-Clause-Clear :recipe: /`cdna_cupcake `_/`meta.yaml `_ .. conda:package:: cdna_cupcake |downloads_cdna_cupcake| |docker_cdna_cupcake| :versions: .. raw:: html
29.0.0-028.0.0-128.0.0-022.0.0-122.0.0-019.0.0-018.1.0-018.0.0-017.0.0-0 ``29.0.0-0``,  ``28.0.0-1``,  ``28.0.0-0``,  ``22.0.0-1``,  ``22.0.0-0``,  ``19.0.0-0``,  ``18.1.0-0``,  ``18.0.0-0``,  ``17.0.0-0``,  ``16.0.0-0``,  ``15.1.0-0``,  ``14.2.0-0``,  ``14.0.0-0``,  ``13.0.0-0``,  ``12.5-0``,  ``12.4.0-1``,  ``12.4.0-0``,  ``12.3.0-0``,  ``12.1.0-1``,  ``12.1.0-0``,  ``12.0.0-0``,  ``11.0.0-0``,  ``10.0.1-0``,  ``9.1.1-0``,  ``9.0.3-0``,  ``8.7.3-0``,  ``5.8-0``,  ``5.3-1``,  ``5.3-0`` .. raw:: html
:depends bcbio-gff: :depends biopython: :depends bx-python: ``>=0.7.3`` :depends graphviz: :depends libgcc-ng: ``>=12`` :depends numpy: ``>=1.21.6,<2.0a0`` :depends pysam: :depends python: ``>=3.10,<3.11.0a0`` :depends python_abi: ``3.10.* *_cp310`` :depends r-base: :depends samtools: ``>=1.10`` :depends scikit-learn: :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 cdna_cupcake and update with:: mamba update cdna_cupcake To create a new environment, run:: mamba create --name myenvname cdna_cupcake 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/cdna_cupcake: (see `cdna_cupcake/tags`_ for valid values for ````) .. |downloads_cdna_cupcake| image:: https://img.shields.io/conda/dn/bioconda/cdna_cupcake.svg?style=flat :target: https://anaconda.org/bioconda/cdna_cupcake :alt: (downloads) .. |docker_cdna_cupcake| image:: https://quay.io/repository/biocontainers/cdna_cupcake/status :target: https://quay.io/repository/biocontainers/cdna_cupcake .. _`cdna_cupcake/tags`: https://quay.io/repository/biocontainers/cdna_cupcake?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/cdna_cupcake/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/cdna_cupcake/README.html