recipe bioconductor-msprep

Package for Summarizing, Filtering, Imputing, and Normalizing Metabolomics Data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-msprep/meta.yaml

Package performs summarization of replicates, filtering by frequency, several different options for imputing missing data, and a variety of options for transforming, batch correcting, and normalizing data.

package bioconductor-msprep

versions:

1.12.0-0,  1.10.0-0,  1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-pcamethods:

>=1.94.0,<1.95.0

depends bioconductor-preprocesscore:

>=1.64.0,<1.65.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends bioconductor-sva:

>=3.50.0,<3.51.0

depends r-base:

>=4.3,<4.4.0a0

depends r-crmn:

depends r-dplyr:

>=0.7

depends r-magrittr:

depends r-missforest:

depends r-rlang:

depends r-stringr:

depends r-tibble:

>=1.2

depends r-tidyr:

depends r-vim:

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-msprep

and update with::

   mamba update bioconductor-msprep

To create a new environment, run:

mamba create --name myenvname bioconductor-msprep

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-msprep:<tag>

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

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Link to this page

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