recipe bioconductor-mscoreutils

Core Utils for Mass Spectrometry Data

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/MsCoreUtils.html

License:

Artistic-2.0

Recipe:

/bioconductor-mscoreutils/meta.yaml

Links:

biotools: mscoreutils, usegalaxy-eu: mscoreutils

MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high-level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning), quantitative aggregation functions (median polish, robust summarisation, …), missing data imputation, data normalisation (quantiles, vsn, …) as well as misc helper functions, that are used across high-level data structure within the R for Mass Spectrometry packages.

package bioconductor-mscoreutils

versions:

1.14.1-1,  1.14.1-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.6.2-0,  1.6.1-0,  1.6.0-0,  1.4.0-0, 

1.14.1-1,  1.14.1-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.6.2-0,  1.6.1-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-s4vectors:

>=0.40.2,<0.41.0a0

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-clue:

depends r-mass:

depends r-rcpp:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see 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-mscoreutils

and update with::

   mamba update bioconductor-mscoreutils

To create a new environment, run:

mamba create --name myenvname bioconductor-mscoreutils

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-mscoreutils:<tag>

(see `bioconductor-mscoreutils/tags`_ for valid values for ``<tag>``)

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