recipe bioconductor-sesame

SEnsible Step-wise Analysis of DNA MEthylation BeadChips

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-sesame/meta.yaml

Tools For analyzing Illumina Infinium DNA methylation arrays. SeSAMe provides utilities to support analyses of multiple generations of Infinium DNA methylation BeadChips, including preprocessing, quality control, visualization and inference. SeSAMe features accurate detection calling, intelligent inference of ethnicity, sex and advanced quality control routines.

package bioconductor-sesame

versions:

1.20.0-0,  1.18.4-0,  1.16.0-0,  1.12.0-0,  1.10.3-0,  1.8.2-0,  1.8.0-0,  1.6.0-0,  1.4.0-1, 

1.20.0-0,  1.18.4-0,  1.16.0-0,  1.12.0-0,  1.10.3-0,  1.8.2-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.0-1,  1.0.0-0

depends bioconductor-biocfilecache:

>=2.10.0,<2.11.0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-genomeinfodb:

>=1.38.0,<1.39.0

depends bioconductor-genomicranges:

>=1.54.0,<1.55.0

depends bioconductor-illuminaio:

>=0.44.0,<0.45.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-preprocesscore:

>=1.64.0,<1.65.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-sesamedata:

>=1.20.0,<1.21.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends r-base:

>=4.3,<4.4.0a0

depends r-dplyr:

depends r-ggplot2:

depends r-mass:

depends r-readr:

depends r-reshape2:

depends r-stringr:

depends r-tibble:

depends r-wheatmap:

>=0.2.0

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-sesame

and update with::

   mamba update bioconductor-sesame

To create a new environment, run:

mamba create --name myenvname bioconductor-sesame

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-sesame:<tag>

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

Download stats

Link to this page

Render an 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-sesame/README.html)