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wiggleplotr
This is thereleased version of wiggleplotr; for the devel version, seewiggleplotr.
Make read coverage plots from BigWig files
Bioconductor version: Release (3.22)
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.
Author: Kaur Alasoo [aut, cre]
Maintainer: Kaur Alasoo <kaur.alasoo at gmail.com>
Citation (from within R, enter
citation("wiggleplotr")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("wiggleplotr")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("wiggleplotr")| Introduction to wiggleplotr | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AlternativeSplicing,ChIPSeq,Coverage,GeneExpression,ImmunoOncology,RNASeq,Sequencing,Software,Transcription,Visualization |
| Version | 1.34.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (8.5 years) |
| License | Apache License 2.0 |
| Depends | R (>= 3.6) |
| Imports | dplyr,ggplot2 (>= 2.2.0),GenomicRanges,rtracklayer,cowplot,assertthat,purrr,S4Vectors,IRanges,GenomeInfoDb |
| System Requirements | |
| URL |
See More
| Suggests | knitr,rmarkdown,biomaRt,GenomicFeatures,testthat,ensembldb,EnsDb.Hsapiens.v86,org.Hs.eg.db,TxDb.Hsapiens.UCSC.hg38.knownGene,AnnotationDbi,AnnotationFilter |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | chevreulPlot,chevreulShiny |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | wiggleplotr_1.34.0.tar.gz |
| Windows Binary (x86_64) | wiggleplotr_1.34.0.zip |
| macOS Binary (x86_64) | wiggleplotr_1.34.0.tgz |
| macOS Binary (arm64) | wiggleplotr_1.34.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/wiggleplotr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/wiggleplotr |
| Bioc Package Browser | https://code.bioconductor.org/browse/wiggleplotr/ |
| Package Short Url | https://bioconductor.org/packages/wiggleplotr/ |
| Package Downloads Report | Download Stats |