chimeraviz

DOI: 10.18129/B9.bioc.chimeraviz    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see chimeraviz.

Visualization tools for gene fusions

Bioconductor version: 3.8

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>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("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")

 

HTML	R Script	chimeraviz
PDF		Reference Manual
Text		NEWS

Details

biocViews	Alignment, Infrastructure, Software
Version	1.8.5
In Bioconductor since	BioC 3.5 (R-3.4) (2 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, ArgumentCheck, gtools
LinkingTo
Suggests	testthat, roxygen2, devtools, knitr, lintr
SystemRequirements	bowtie, samtools, and egrep are required for some functionalities
Enhances
URL	https://github.com/stianlagstad/chimeraviz
BugReports	https://github.com/stianlagstad/chimeraviz/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	chimeraviz_1.8.5.tar.gz
Windows Binary	chimeraviz_1.8.5.zip
Mac OS X 10.11 (El Capitan)	chimeraviz_1.8.5.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	http://bioconductor.org/packages/chimeraviz/
Package Downloads Report	Download Stats