:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-tenxio' .. highlight: bash bioconductor-tenxio =================== .. conda:recipe:: bioconductor-tenxio :replaces_section_title: :noindex: Import methods for 10X Genomics files :homepage: https://bioconductor.org/packages/3.18/bioc/html/TENxIO.html :license: Artistic-2.0 :recipe: /`bioconductor-tenxio `_/`meta.yaml `_ Provides a structured S4 approach to importing data files from the 10X pipelines. It mainly supports Single Cell Multiome ATAC \+ Gene Expression data among other data types. The main Bioconductor data representations used are SingleCellExperiment and RaggedExperiment. .. conda:package:: bioconductor-tenxio |downloads_bioconductor-tenxio| |docker_bioconductor-tenxio| :versions: ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-0`` :depends bioconductor-biocbaseutils: ``>=1.4.0,<1.5.0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocio: ``>=1.12.0,<1.13.0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-matrixgenerics: ``>=1.14.0,<1.15.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-singlecellexperiment: ``>=1.24.0,<1.25.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-matrix: :depends r-r.utils: :depends r-rcurl: :depends r-readr: :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 bioconductor-tenxio and update with:: mamba update bioconductor-tenxio To create a new environment, run:: mamba create --name myenvname bioconductor-tenxio 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/bioconductor-tenxio: (see `bioconductor-tenxio/tags`_ for valid values for ````) .. |downloads_bioconductor-tenxio| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-tenxio.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-tenxio :alt: (downloads) .. |docker_bioconductor-tenxio| image:: https://quay.io/repository/biocontainers/bioconductor-tenxio/status :target: https://quay.io/repository/biocontainers/bioconductor-tenxio .. _`bioconductor-tenxio/tags`: https://quay.io/repository/biocontainers/bioconductor-tenxio?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/bioconductor-tenxio/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-tenxio/README.html