recipe bioconductor-megadepth

megadepth: BigWig and BAM related utilities

Homepage

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

License

Artistic-2.0

Recipe

/bioconductor-megadepth/meta.yaml

This package provides an R interface to Megadepth by Christopher Wilks available at https://github.com/ChristopherWilks/megadepth. It is particularly useful for computing the coverage of a set of genomic regions across bigWig or BAM files. With this package, you can build base-pair coverage matrices for regions or annotations of your choice from BigWig files. Megadepth was used to create the raw files provided by https://bioconductor.org/packages/recount3.

package bioconductor-megadepth

Versions

1.4.0-0,  1.2.0-0,  1.0.3-0,  1.0.0-1

Depends

• bioconductor-genomicranges >=1.46.0,<1.47.0

• r-base >=4.1,<4.2.0a0

• r-cmdfun

• r-dplyr

• r-fs

• r-magrittr

• r-readr

• r-xfun

Required By

• bioconductor-oder

• bioconductor-dasper

Installation

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

conda install bioconductor-megadepth

and update with:

conda update bioconductor-megadepth

or use the docker container:

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

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

Download stats

Link to this page

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[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-megadepth/README.html)