:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-countsimqc' .. highlight: bash bioconductor-countsimqc ======================= .. conda:recipe:: bioconductor-countsimqc :replaces_section_title: :noindex: Compare Characteristic Features of Count Data Sets :homepage: https://bioconductor.org/packages/3.18/bioc/html/countsimQC.html :license: GPL (>=2) :recipe: /`bioconductor-countsimqc `_/`meta.yaml `_ countsimQC provides functionality to create a comprehensive report comparing a broad range of characteristics across a collection of count matrices. One important use case is the comparison of one or more synthetic count matrices to a real count matrix\, possibly the one underlying the simulations. However\, any collection of count matrices can be compared. .. conda:package:: bioconductor-countsimqc |downloads_bioconductor-countsimqc| |docker_bioconductor-countsimqc| :versions: .. raw:: html
1.20.0-01.18.0-01.16.0-01.12.0-01.10.0-01.8.1-01.8.0-01.6.0-01.4.0-0 ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.1-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.0-1``,  ``1.0.0-0`` .. raw:: html
:depends bioconductor-deseq2: ``>=1.42.0,<1.43.0`` :depends bioconductor-edger: ``>=4.0.0,<4.1.0`` :depends bioconductor-genefilter: ``>=1.84.0,<1.85.0`` :depends bioconductor-genomeinfodbdata: ``>=1.2.0,<1.3.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-catools: :depends r-dplyr: :depends r-dt: :depends r-ggplot2: :depends r-ragg: :depends r-randtests: :depends r-rmarkdown: ``>=2.5`` :depends r-tidyr: :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-countsimqc and update with:: mamba update bioconductor-countsimqc To create a new environment, run:: mamba create --name myenvname bioconductor-countsimqc 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-countsimqc: (see `bioconductor-countsimqc/tags`_ for valid values for ````) .. |downloads_bioconductor-countsimqc| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-countsimqc.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-countsimqc :alt: (downloads) .. |docker_bioconductor-countsimqc| image:: https://quay.io/repository/biocontainers/bioconductor-countsimqc/status :target: https://quay.io/repository/biocontainers/bioconductor-countsimqc .. _`bioconductor-countsimqc/tags`: https://quay.io/repository/biocontainers/bioconductor-countsimqc?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-countsimqc/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-countsimqc/README.html