recipe bioconductor-scmeth

Functions to conduct quality control analysis in methylation data

Homepage

https://bioconductor.org/packages/3.12/bioc/html/scmeth.html

License

GPL-2

Recipe

/bioconductor-scmeth/meta.yaml

Functions to analyze methylation data can be found here. Some functions are relevant for single cell methylation data but most other functions can be used for any methylation data. Highlight of this workflow is the comprehensive quality control report.

package bioconductor-scmeth

Versions

1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.1-0

Depends

• bioconductor-annotationhub >=2.22.0,<2.23.0

• bioconductor-annotatr >=1.16.0,<1.17.0

• bioconductor-biostrings >=2.58.0,<2.59.0

• bioconductor-bsgenome >=1.58.0,<1.59.0

• bioconductor-bsseq >=1.26.0,<1.27.0

• bioconductor-delayedarray >=0.16.0,<0.17.0

• bioconductor-genomeinfodb >=1.26.0,<1.27.0

• bioconductor-genomicranges >=1.42.0,<1.43.0

• bioconductor-hdf5array >=1.18.0,<1.19.0

• bioconductor-summarizedexperiment >=1.20.0,<1.21.0

• r-base >=4.0,<4.1.0a0

• r-dt

• r-knitr

• r-reshape2

• r-rmarkdown

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-scmeth

and update with:

conda update bioconductor-scmeth

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-scmeth:<tag>

(see bioconductor-scmeth/tags for valid values for <tag>)

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-scmeth/README.html)