recipe bioconductor-nanomethviz

Visualise methlation data from Oxford Nanopore sequencing

Homepage

https://bioconductor.org/packages/3.14/bioc/html/NanoMethViz.html

License

Apache License (>= 2.0)

Recipe

/bioconductor-nanomethviz/meta.yaml

NanoMethViz is a toolkit for visualising methylation data from Oxford Nanopore sequencing. It can be used to explore methylation patterns from reads derived from Oxford Nanopore direct DNA sequencing with methylation called by callers including nanopolish, f5c and megalodon. The plots in this package allow the visualisation of methylation profiles aggregated over experimental groups and across classes of genomic features.

package bioconductor-nanomethviz

Versions

2.0.0-0,  1.2.0-0,  1.0.0-2,  1.0.0-1

Depends

• bioconductor-annotationdbi >=1.56.0,<1.57.0

• bioconductor-biocsingular >=1.10.0,<1.11.0

• bioconductor-bsseq >=1.30.0,<1.31.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-limma >=3.50.0,<3.51.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• bioconductor-zlibbioc >=1.40.0,<1.41.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=9.4.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=9.4.0

• r-assertthat

• r-base >=4.1,<4.2.0a0

• r-cpp11 >=0.2.5

• r-data.table

• r-dplyr

• r-e1071

• r-forcats

• r-fs

• r-ggplot2

• r-ggthemes

• r-glue

• r-patchwork

• r-purrr

• r-rcpp

• r-readr

• r-rlang

• r-rsqlite

• r-scales

• r-scico

• r-stringr

• r-tibble

• r-tidyr

• r-withr

Required By

Installation

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

conda install bioconductor-nanomethviz

and update with:

conda update bioconductor-nanomethviz

or use the docker container:

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

(see bioconductor-nanomethviz/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-nanomethviz/README.html)