:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'mapcaller' .. highlight: bash mapcaller ========= .. conda:recipe:: mapcaller :replaces_section_title: :noindex: MapCaller\: combined short\-read mapper and variant caller :homepage: https://github.com/hsinnan75/MapCaller :license: MIT :recipe: /`mapcaller `_/`meta.yaml `_ :links: doi: :doi:`10.1101/783605` An efficient and versatile approach for short\-read mapping and variant identification using high\-throughput sequenced data. .. conda:package:: mapcaller |downloads_mapcaller| |docker_mapcaller| :versions: .. raw:: html
0.9.9.41-40.9.9.41-30.9.9.41-20.9.9.41-10.9.9.41-00.9.9.40-00.9.9.39-00.9.9.38-00.9.9.37-0 ``0.9.9.41-4``,  ``0.9.9.41-3``,  ``0.9.9.41-2``,  ``0.9.9.41-1``,  ``0.9.9.41-0``,  ``0.9.9.40-0``,  ``0.9.9.39-0``,  ``0.9.9.38-0``,  ``0.9.9.37-0``,  ``0.9.9.35-0``,  ``0.9.9.34-0``,  ``0.9.9.33-0``,  ``0.9.9.32-0``,  ``0.9.9.31-0``,  ``0.9.9.30-0``,  ``0.9.9.29-0``,  ``0.9.9.28-0``,  ``0.9.9.27-0``,  ``0.9.9.26-0``,  ``0.9.9.25-0``,  ``0.9.9.23-0``,  ``0.9.9.22-0``,  ``0.9.9.21-0``,  ``0.9.9.19-0``,  ``0.9.9.18-0``,  ``0.9.9.17-0``,  ``0.9.9.16-0``,  ``0.9.9.15-0``,  ``0.9.9.7-0``,  ``0.9.9.6-0`` .. raw:: html
:depends boost-cpp: ``>=1.78.0,<1.78.1.0a0`` :depends bzip2: ``>=1.0.8,<2.0a0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends libzlib: ``>=1.2.13,<1.3.0a0`` :depends xz: ``>=5.2.6,<6.0a0`` :depends zlib: :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 mapcaller and update with:: mamba update mapcaller To create a new environment, run:: mamba create --name myenvname mapcaller 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/mapcaller: (see `mapcaller/tags`_ for valid values for ````) .. |downloads_mapcaller| image:: https://img.shields.io/conda/dn/bioconda/mapcaller.svg?style=flat :target: https://anaconda.org/bioconda/mapcaller :alt: (downloads) .. |docker_mapcaller| image:: https://quay.io/repository/biocontainers/mapcaller/status :target: https://quay.io/repository/biocontainers/mapcaller .. _`mapcaller/tags`: https://quay.io/repository/biocontainers/mapcaller?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/mapcaller/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/mapcaller/README.html