chimeraviz

This is the released version of chimeraviz; for the devel version, see chimeraviz.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5

Visualization tools for gene fusions

Bioconductor version: Release (3.23)

chimeraviz manages data from fusion gene finders and provides useful visualization tools.

Author: Stian Lågstad [aut, cre], Sen Zhao [ctb], Andreas M. Hoff [ctb], Bjarne Johannessen [ctb], Ole Christian Lingjærde [ctb], Rolf Skotheim [ctb]

Maintainer: Stian Lågstad <stianlagstad at gmail.com>

Citation (from within R, enter citation("chimeraviz")):

Stian Lågstad. chimeraviz: Visualization tools for gene fusions. doi:10.18129/B9.bioc.chimeraviz, R package version 1.38.0, https://bioconductor.org/packages/chimeraviz.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("chimeraviz")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("chimeraviz")

chimeraviz	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Alignment, Infrastructure, Software
Version	1.38.0
In Bioconductor since	BioC 3.5 (R-3.4) (9.5 years)
License	Artistic-2.0
Depends	Biostrings, GenomicRanges, IRanges, Gviz, S4Vectors, ensembldb, AnnotationFilter, data.table
Imports	methods, grid, Rsamtools, GenomeInfoDb, GenomicAlignments, RColorBrewer, graphics, AnnotationDbi, RCircos, org.Hs.eg.db, org.Mm.eg.db, rmarkdown, graph, Rgraphviz, DT, plyr, dplyr, BiocStyle, checkmate, gtools, magick
System Requirements	bowtie, samtools, and egrep are required for some functionalities
URL	https://github.com/stianlagstad/chimeraviz
Bug Reports	https://github.com/stianlagstad/chimeraviz/issues

Suggests	testthat, roxygen2, devtools, knitr, lintr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	chimeraviz_1.38.0.tar.gz
Windows Binary (x86_64)	chimeraviz_1.38.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	chimeraviz_1.38.0.tgz
macOS Binary (sonoma-arm64)	chimeraviz_1.38.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/chimeraviz
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/chimeraviz
Package Short Url	https://bioconductor.org/packages/chimeraviz/
Package Downloads Report	Download Stats