chimeraviz
Visualization tools for gene fusions
Bioconductor version: Release (3.19)
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")):
Installation
To install this package, start R (version "4.4") 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 | ||
| NEWS | Text |
Details
| biocViews | Alignment, Infrastructure, Software |
| Version | 1.30.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7.5 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 |
See More
| Suggests | testthat, roxygen2, devtools, knitr, lintr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | chimeraviz_1.30.0.tar.gz |
| Windows Binary (x86_64) | chimeraviz_1.30.0.zip (64-bit only) |
| macOS Binary (x86_64) | chimeraviz_1.30.0.tgz |
| macOS Binary (arm64) | chimeraviz_1.30.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/chimeraviz |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/chimeraviz |
| Bioc Package Browser | https://code.bioconductor.org/browse/chimeraviz/ |
| Package Short Url | https://bioconductor.org/packages/chimeraviz/ |
| Package Downloads Report | Download Stats |