:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'snp-pileup' .. highlight: bash snp-pileup ========== .. conda:recipe:: snp-pileup :replaces_section_title: :noindex: Compute SNP pileup at reference positions in one or more input bam files. Output is ready for the R package facets :homepage: https://github.com/mskcc/facets :license: MIT / MIT :recipe: /`snp-pileup `_/`meta.yaml `_ .. conda:package:: snp-pileup |downloads_snp-pileup| |docker_snp-pileup| :versions: .. raw:: html
0.6.2-50.6.2-40.6.2-30.6.2-20.6.2-10.6.2-00.6.1-10.6.1-00.5.14-3 ``0.6.2-5``,  ``0.6.2-4``,  ``0.6.2-3``,  ``0.6.2-2``,  ``0.6.2-1``,  ``0.6.2-0``,  ``0.6.1-1``,  ``0.6.1-0``,  ``0.5.14-3``,  ``0.5.14-2``,  ``0.5.14-1``,  ``0.5.14-0``,  ``v0.5.14-0`` .. raw:: html
:depends htslib: ``>=1.17,<1.20.0a0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :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 snp-pileup and update with:: mamba update snp-pileup To create a new environment, run:: mamba create --name myenvname snp-pileup 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/snp-pileup: (see `snp-pileup/tags`_ for valid values for ````) .. |downloads_snp-pileup| image:: https://img.shields.io/conda/dn/bioconda/snp-pileup.svg?style=flat :target: https://anaconda.org/bioconda/snp-pileup :alt: (downloads) .. |docker_snp-pileup| image:: https://quay.io/repository/biocontainers/snp-pileup/status :target: https://quay.io/repository/biocontainers/snp-pileup .. _`snp-pileup/tags`: https://quay.io/repository/biocontainers/snp-pileup?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/snp-pileup/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/snp-pileup/README.html