recipe bioconductor-methylclock

Methylclock - DNA methylation-based clocks

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-methylclock/meta.yaml

This package allows to estimate chronological and gestational DNA methylation (DNAm) age as well as biological age using different methylation clocks. Chronological DNAm age (in years) : Horvath's clock, Hannum's clock, BNN, Horvath's skin+blood clock, PedBE clock and Wu's clock. Gestational DNAm age : Knight's clock, Bohlin's clock, Mayne's clock and Lee's clocks. Biological DNAm clocks : Levine's clock and Telomere Length's clock.

package bioconductor-methylclock

versions:

1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.0.1-1,  1.0.1-0,  1.0.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biobase:

>=2.62.0,<2.63.0a0

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0a0

depends bioconductor-impute:

>=1.76.0,<1.77.0

depends bioconductor-impute:

>=1.76.0,<1.77.0a0

depends bioconductor-methylclockdata:

>=1.10.0,<1.11.0

depends bioconductor-methylclockdata:

>=1.10.0,<1.11.0a0

depends bioconductor-minfi:

>=1.48.0,<1.49.0

depends bioconductor-minfi:

>=1.48.0,<1.49.0a0

depends bioconductor-planet:

>=1.10.0,<1.11.0

depends bioconductor-planet:

>=1.10.0,<1.11.0a0

depends bioconductor-preprocesscore:

>=1.64.0,<1.65.0

depends bioconductor-preprocesscore:

>=1.64.0,<1.65.0a0

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-devtools:

depends r-dplyr:

depends r-dynamictreecut:

depends r-ggplot2:

depends r-ggpmisc:

depends r-ggpubr:

depends r-gridextra:

depends r-performanceanalytics:

depends r-quadprog:

depends r-rcpp:

>=1.0.6

depends r-rpmm:

depends r-tibble:

depends r-tidyr:

depends r-tidyverse:

requirements:

additional platforms:

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-methylclock

and update with::

   mamba update bioconductor-methylclock

To create a new environment, run:

mamba create --name myenvname bioconductor-methylclock

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-methylclock:<tag>

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

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Link to this page

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