:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-fieldeffectcrc' .. highlight: bash bioconductor-fieldeffectcrc =========================== .. conda:recipe:: bioconductor-fieldeffectcrc :replaces_section_title: :noindex: Tumor\, tumor\-adjacent normal\, and healthy colorectal transcriptomes as SummarizedExperiment objects :homepage: https://bioconductor.org/packages/3.18/data/experiment/html/FieldEffectCrc.html :license: Artistic-2.0 :recipe: /`bioconductor-fieldeffectcrc `_/`meta.yaml `_ Processed RNA\-seq data for 1\,139 human primary colorectal tissue samples across three phenotypes\, including tumor\, normal adjacent\-to\-tumor\, and healthy\, available as Synapse ID syn22237139 on synapse.org. Data have been parsed into SummarizedExperiment objects available via ExperimentHub to facilitate reproducibility and extension of results from Dampier et al. \(PMCID\: PMC7386360\, PMID\: 32764205\). .. conda:package:: bioconductor-fieldeffectcrc |downloads_bioconductor-fieldeffectcrc| |docker_bioconductor-fieldeffectcrc| :versions: ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.4.0-1``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-1``,  ``1.0.0-0`` :depends bioconductor-annotationhub: ``>=3.10.0,<3.11.0`` :depends bioconductor-biocstyle: ``>=2.30.0,<2.31.0`` :depends bioconductor-data-packages: ``>=20231203`` :depends bioconductor-deseq2: ``>=1.42.0,<1.43.0`` :depends bioconductor-experimenthub: ``>=2.10.0,<2.11.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends curl: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-runit: :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-fieldeffectcrc and update with:: mamba update bioconductor-fieldeffectcrc To create a new environment, run:: mamba create --name myenvname bioconductor-fieldeffectcrc 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-fieldeffectcrc: (see `bioconductor-fieldeffectcrc/tags`_ for valid values for ````) .. |downloads_bioconductor-fieldeffectcrc| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-fieldeffectcrc.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-fieldeffectcrc :alt: (downloads) .. |docker_bioconductor-fieldeffectcrc| image:: https://quay.io/repository/biocontainers/bioconductor-fieldeffectcrc/status :target: https://quay.io/repository/biocontainers/bioconductor-fieldeffectcrc .. _`bioconductor-fieldeffectcrc/tags`: https://quay.io/repository/biocontainers/bioconductor-fieldeffectcrc?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-fieldeffectcrc/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-fieldeffectcrc/README.html