:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-xcms' .. highlight: bash bioconductor-xcms ================= .. conda:recipe:: bioconductor-xcms :replaces_section_title: :noindex: LC\-MS and GC\-MS Data Analysis :homepage: https://bioconductor.org/packages/3.18/bioc/html/xcms.html :license: GPL (>= 2) + file LICENSE :recipe: /`bioconductor-xcms `_/`meta.yaml `_ Framework for processing and visualization of chromatographically separated and single\-spectra mass spectral data. Imports from AIA\/ANDI NetCDF\, mzXML\, mzData and mzML files. Preprocesses data for high\-throughput\, untargeted analyte profiling. .. conda:package:: bioconductor-xcms |downloads_bioconductor-xcms| |docker_bioconductor-xcms| :versions: .. raw:: html
4.0.0-03.22.0-03.20.0-13.20.0-03.16.1-13.16.1-03.16.0-03.14.0-03.12.0-1 ``4.0.0-0``,  ``3.22.0-0``,  ``3.20.0-1``,  ``3.20.0-0``,  ``3.16.1-1``,  ``3.16.1-0``,  ``3.16.0-0``,  ``3.14.0-0``,  ``3.12.0-1``,  ``3.12.0-0``,  ``3.10.0-0``,  ``3.8.0-0``,  ``3.6.1-0``,  ``3.4.4-0``,  ``3.4.2-0``,  ``3.4.1-0``,  ``3.0.0-1``,  ``3.0.0-0``,  ``1.52.0-1``,  ``1.52.0-0``,  ``1.50.1-0``,  ``1.48.0-1``,  ``1.46.0-1``,  ``1.46.0-0``,  ``1.44.0-1``,  ``1.44.0-0`` .. raw:: html
:depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0a0`` :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-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0a0`` :depends bioconductor-massspecwavelet: ``>=1.68.0,<1.69.0`` :depends bioconductor-massspecwavelet: ``>=1.68.0,<1.69.0a0`` :depends bioconductor-mscoreutils: ``>=1.14.0,<1.15.0`` :depends bioconductor-mscoreutils: ``>=1.14.1,<1.15.0a0`` :depends bioconductor-msexperiment: ``>=1.4.0,<1.5.0`` :depends bioconductor-msexperiment: ``>=1.4.0,<1.5.0a0`` :depends bioconductor-msfeatures: ``>=1.10.0,<1.11.0`` :depends bioconductor-msfeatures: ``>=1.10.0,<1.11.0a0`` :depends bioconductor-msnbase: ``>=2.28.0,<2.29.0`` :depends bioconductor-msnbase: ``>=2.28.1,<2.29.0a0`` :depends bioconductor-multtest: ``>=2.58.0,<2.59.0`` :depends bioconductor-multtest: ``>=2.58.0,<2.59.0a0`` :depends bioconductor-mzr: ``>=2.36.0,<2.37.0`` :depends bioconductor-mzr: ``>=2.36.0,<2.37.0a0`` :depends bioconductor-protgenerics: ``>=1.34.0,<1.35.0`` :depends bioconductor-protgenerics: ``>=1.34.0,<1.35.0a0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-s4vectors: ``>=0.40.2,<0.41.0a0`` :depends bioconductor-spectra: ``>=1.12.0,<1.13.0`` :depends bioconductor-spectra: ``>=1.12.0,<1.13.0a0`` :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-lattice: :depends r-plyr: :depends r-progress: :depends r-rann: :depends r-rcolorbrewer: :depends r-robustbase: :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-xcms and update with:: mamba update bioconductor-xcms To create a new environment, run:: mamba create --name myenvname bioconductor-xcms 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-xcms: (see `bioconductor-xcms/tags`_ for valid values for ````) .. |downloads_bioconductor-xcms| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-xcms.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-xcms :alt: (downloads) .. |docker_bioconductor-xcms| image:: https://quay.io/repository/biocontainers/bioconductor-xcms/status :target: https://quay.io/repository/biocontainers/bioconductor-xcms .. _`bioconductor-xcms/tags`: https://quay.io/repository/biocontainers/bioconductor-xcms?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-xcms/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-xcms/README.html