wiggleplotr

Make read coverage plots from BigWig files

Bioconductor version: 3.24 · Package version: 1.37.0

Tools to visualise read coverage from sequencing experiments together with genomic annotations (genes, transcripts, peaks). Introns of long transcripts can be rescaled to a fixed length for better visualisation of exonic read coverage.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("wiggleplotr")

Details

Maintainer	Kaur Alasoo <kaur.alasoo@gmail.com>
Author	Kaur Alasoo [aut, cre]
License	Apache License 2.0
Downloads rank	585
Source branch	devel
biocViews	AlternativeSplicing, ChIPSeq, Coverage, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software, Transcription, Visualization

Documentation

Introduction to wiggleplotr

Download

Follow the installation instructions to use this package in your R session.

Source package	wiggleplotr_1.37.0.tar.gz
Windows binary (x86_64)	wiggleplotr_1.37.0.zip
macOS binary (arm64)	wiggleplotr_1.37.0.tgz
macOS binary (x86_64)	wiggleplotr_1.37.0.tgz

Dependencies

Depends: R (>= 3.6)

Imports: dplyr, ggplot2 (>= 2.2.0), GenomicRanges, rtracklayer, cowplot, assertthat, purrr, S4Vectors, IRanges, GenomeInfoDb

Suggests: knitr, rmarkdown, biomaRt, GenomicFeatures, testthat, ensembldb, EnsDb.Hsapiens.v86, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg38.knownGene, AnnotationDbi, AnnotationFilter, arrow

Reverse dependencies

Imports Me (3): chevreulPlot, chevreulShiny, factR

Suggests Me (1): splicelogic