:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-dropletutils' .. highlight: bash bioconductor-dropletutils ========================= .. conda:recipe:: bioconductor-dropletutils :replaces_section_title: :noindex: Utilities for Handling Single\-Cell Droplet Data :homepage: https://bioconductor.org/packages/3.18/bioc/html/DropletUtils.html :license: GPL-3 :recipe: /`bioconductor-dropletutils `_/`meta.yaml `_ :links: biotools: :biotools:`DropletUtils` Provides a number of utility functions for handling single\-cell \(RNA\-seq\) data from droplet technologies such as 10X Genomics. This includes data loading from count matrices or molecule information files\, identification of cells from empty droplets\, removal of barcode\-swapped pseudo\-cells\, and downsampling of the count matrix. .. conda:package:: bioconductor-dropletutils |downloads_bioconductor-dropletutils| |docker_bioconductor-dropletutils| :versions: .. raw:: html
1.22.0-01.20.0-01.18.0-11.18.0-01.14.2-11.14.2-01.14.0-01.12.1-01.12.0-0 ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-1``,  ``1.18.0-0``,  ``1.14.2-1``,  ``1.14.2-0``,  ``1.14.0-0``,  ``1.12.1-0``,  ``1.12.0-0``,  ``1.10.3-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.1-0``,  ``1.4.2-0``,  ``1.2.1-0``,  ``1.0.3-0`` .. raw:: html
:depends bioconductor-beachmat: ``>=2.18.0,<2.19.0`` :depends bioconductor-beachmat: ``>=2.18.0,<2.19.0a0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocgenerics: ``>=0.48.1,<0.49.0a0`` :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0`` :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0a0`` :depends bioconductor-delayedarray: ``>=0.28.0,<0.29.0`` :depends bioconductor-delayedarray: ``>=0.28.0,<0.29.0a0`` :depends bioconductor-delayedmatrixstats: ``>=1.24.0,<1.25.0`` :depends bioconductor-delayedmatrixstats: ``>=1.24.0,<1.25.0a0`` :depends bioconductor-edger: ``>=4.0.0,<4.1.0`` :depends bioconductor-edger: ``>=4.0.2,<4.1.0a0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-genomicranges: ``>=1.54.1,<1.55.0a0`` :depends bioconductor-hdf5array: ``>=1.30.0,<1.31.0`` :depends bioconductor-hdf5array: ``>=1.30.0,<1.31.0a0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0a0`` :depends bioconductor-rhdf5: ``>=2.46.0,<2.47.0`` :depends bioconductor-rhdf5: ``>=2.46.1,<2.47.0a0`` :depends bioconductor-rhdf5lib: ``>=1.24.0,<1.25.0`` :depends bioconductor-rhdf5lib: ``>=1.24.0,<1.25.0a0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-s4vectors: ``>=0.40.2,<0.41.0a0`` :depends bioconductor-scuttle: ``>=1.12.0,<1.13.0`` :depends bioconductor-scuttle: ``>=1.12.0,<1.13.0a0`` :depends bioconductor-singlecellexperiment: ``>=1.24.0,<1.25.0`` :depends bioconductor-singlecellexperiment: ``>=1.24.0,<1.25.0a0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-bh: :depends r-dqrng: :depends r-matrix: :depends r-r.utils: :depends r-rcpp: :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-dropletutils and update with:: mamba update bioconductor-dropletutils To create a new environment, run:: mamba create --name myenvname bioconductor-dropletutils 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-dropletutils: (see `bioconductor-dropletutils/tags`_ for valid values for ````) .. |downloads_bioconductor-dropletutils| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-dropletutils.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-dropletutils :alt: (downloads) .. |docker_bioconductor-dropletutils| image:: https://quay.io/repository/biocontainers/bioconductor-dropletutils/status :target: https://quay.io/repository/biocontainers/bioconductor-dropletutils .. _`bioconductor-dropletutils/tags`: https://quay.io/repository/biocontainers/bioconductor-dropletutils?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-dropletutils/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-dropletutils/README.html