:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'dropseq_tools' .. highlight: bash dropseq_tools ============= .. conda:recipe:: dropseq_tools :replaces_section_title: :noindex: Package for the analysis of Drop\-seq data developed by Jim Nemesh in the McCarroll Lab :homepage: http://mccarrolllab.com/dropseq/ :license: MIT / MIT :recipe: /`dropseq_tools `_/`meta.yaml `_ .. conda:package:: dropseq_tools |downloads_dropseq_tools| |docker_dropseq_tools| :versions: ``2.5.1-0``,  ``2.5.0-0``,  ``2.4.1-0``,  ``2.4.0-1``,  ``2.4.0-0``,  ``2.3.0-0``,  ``2.0.0-0``,  ``1.13-0`` :depends openjdk: ``>=8`` :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 dropseq_tools and update with:: mamba update dropseq_tools To create a new environment, run:: mamba create --name myenvname dropseq_tools 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/dropseq_tools: (see `dropseq_tools/tags`_ for valid values for ````) .. |downloads_dropseq_tools| image:: https://img.shields.io/conda/dn/bioconda/dropseq_tools.svg?style=flat :target: https://anaconda.org/bioconda/dropseq_tools :alt: (downloads) .. |docker_dropseq_tools| image:: https://quay.io/repository/biocontainers/dropseq_tools/status :target: https://quay.io/repository/biocontainers/dropseq_tools .. _`dropseq_tools/tags`: https://quay.io/repository/biocontainers/dropseq_tools?tab=tags .. raw:: html Notes ----- Drop\-seq\_tools utilities are wrapper shell scripts. To get help on individual tool\, use e.g. \`PolyATrimmer \-\- \-\-help\` 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/dropseq_tools/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/dropseq_tools/README.html