:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-gmapr' .. highlight: bash bioconductor-gmapr ================== .. conda:recipe:: bioconductor-gmapr :replaces_section_title: :noindex: An R interface to the GMAP\/GSNAP\/GSTRUCT suite :homepage: https://bioconductor.org/packages/3.14/bioc/html/gmapR.html :license: Artistic-2.0 :recipe: /`bioconductor-gmapr `_/`meta.yaml `_ GSNAP and GMAP are a pair of tools to align short\-read data written by Tom Wu. This package provides convenience methods to work with GMAP and GSNAP from within R. In addition\, it provides methods to tally alignment results on a per\-nucleotide basis using the bam\_tally tool. .. conda:package:: bioconductor-gmapr |downloads_bioconductor-gmapr| |docker_bioconductor-gmapr| :versions: .. raw:: html
1.36.0-11.36.0-01.34.0-01.32.0-21.32.0-11.32.0-01.30.0-01.28.0-01.26.0-1 ``1.36.0-1``,  ``1.36.0-0``,  ``1.34.0-0``,  ``1.32.0-2``,  ``1.32.0-1``,  ``1.32.0-0``,  ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-1``,  ``1.24.1-0`` .. raw:: html
:depends bioconductor-biobase: ``>=2.54.0,<2.55.0`` :depends bioconductor-biocgenerics: ``>=0.40.0,<0.41.0`` :depends bioconductor-biocparallel: ``>=1.28.0,<1.29.0`` :depends bioconductor-biostrings: ``>=2.62.0,<2.63.0`` :depends bioconductor-bsgenome: ``>=1.62.0,<1.63.0`` :depends bioconductor-genomeinfodb: ``>=1.30.0,<1.31.0`` :depends bioconductor-genomicalignments: ``>=1.30.0,<1.31.0`` :depends bioconductor-genomicfeatures: ``>=1.46.0,<1.47.0`` :depends bioconductor-genomicranges: ``>=1.46.0,<1.47.0`` :depends bioconductor-iranges: ``>=2.28.0,<2.29.0`` :depends bioconductor-rsamtools: ``>=2.10.0,<2.11.0`` :depends bioconductor-rtracklayer: ``>=1.54.0,<1.55.0`` :depends bioconductor-s4vectors: ``>=0.32.0,<0.33.0`` :depends bioconductor-variantannotation: ``>=1.40.0,<1.41.0`` :depends libblas: ``>=3.8.0,<4.0a0`` :depends libgcc-ng: ``>=10.3.0`` :depends liblapack: ``>=3.8.0,<4.0a0`` :depends r-base: ``>=4.1,<4.2.0a0`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install bioconductor-gmapr and update with:: conda update bioconductor-gmapr or use the docker container:: docker pull quay.io/biocontainers/bioconductor-gmapr: (see `bioconductor-gmapr/tags`_ for valid values for ````) .. |downloads_bioconductor-gmapr| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-gmapr.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-gmapr :alt: (downloads) .. |docker_bioconductor-gmapr| image:: https://quay.io/repository/biocontainers/bioconductor-gmapr/status :target: https://quay.io/repository/biocontainers/bioconductor-gmapr .. _`bioconductor-gmapr/tags`: https://quay.io/repository/biocontainers/bioconductor-gmapr?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-gmapr/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-gmapr/README.html