Package: r-bioc-megadepth (1.16.0+ds-1)

[ Source: r-bioc-megadepth  ]

Experimental package

Warning: This package is from the experimental distribution. That means it is likely unstable or buggy, and it may even cause data loss. Please be sure to consult the changelog and other possible documentation before using it.

BioCOnductor BigWig and BAM related utilities

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.

Other Packages Related to r-bioc-megadepth

• dep: megadepth

  computes coverage from BigWig and BAM sequencing files

• dep: r-api-4.0

  Package not available

• dep: r-api-bioc-3.20

  virtual package provided by r-bioc-biocgenerics

• dep: r-bioc-genomicranges

  BioConductor representation and manipulation of genomic intervals

• dep: r-cran-cmdfun

  GNI R framework for building interfaces to shell commands

• dep: r-cran-dplyr

  GNU R grammar of data manipulation

• dep: r-cran-fs

  GNU R cross-platform file system operations

• dep: r-cran-magrittr

  GNU R forward-pipe operator

• dep: r-cran-readr

  GNU R package to read rectangular text data

• dep: r-cran-xfun

  miscellaneous GNU R functions by 'Yihui Xie'

• sug: r-bioc-biocstyle

  standard styles for vignettes and other Bioconductor documents

• sug: r-bioc-genomeinfodb

  BioConductor utilities for manipulating chromosome identifiers

• sug: r-bioc-rtracklayer

  GNU R interface to genome browsers and their annotation tracks

• sug: r-cran-covr

  test coverage for GNU R packages

• sug: r-cran-knitr

  GNU R package for dynamic report generation using Literate Programming

• sug: r-cran-rmarkdown

  convert R markdown documents into a variety of formats

• sug: r-cran-sessioninfo

  R Session Information

• sug: r-cran-testthat

  GNU R testsuite

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