chimera
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.12 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see chimera.
A package for secondary analysis of fusion products
Bioconductor version: 3.12
This package facilitates the characterisation of fusion products events. It allows to import fusion data results from the following fusion finders: chimeraScan, bellerophontes, deFuse, FusionFinder, FusionHunter, mapSplice, tophat-fusion, FusionMap, STAR, Rsubread, fusionCatcher.
Author: Raffaele A Calogero, Matteo Carrara, Marco Beccuti, Francesca Cordero
Maintainer: Raffaele A Calogero <raffaele.calogero at unito.it>
citation("chimera")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("chimera")
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("chimera")| chimera | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure, Software |
| Version | 1.32.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11 years) |
| License | Artistic-2.0 |
| Depends | Biobase, GenomicRanges(>= 1.13.3), Rsamtools(>= 1.13.1), GenomicAlignments, methods, AnnotationDbi, BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, Homo.sapiens |
| Imports | |
| System Requirements | STAR, TopHat, bowtie and samtools are required for some functionalities |
| URL |
See More
| Suggests | BiocParallel, geneplotter |
| Linking To | |
| Enhances | Rsubread, BSgenome.Mmusculus.UCSC.mm9, TxDb.Mmusculus.UCSC.mm9.knownGene, BSgenome.Mmusculus.UCSC.mm10, TxDb.Mmusculus.UCSC.mm10.knownGene, Mus.musculus, BSgenome.Hsapiens.NCBI.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene |
| 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 | chimera_1.32.0.tar.gz |
| Windows Binary | |
| macOS 10.13 (High Sierra) | chimera_1.32.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/chimera |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/chimera |
| Package Short Url | https://bioconductor.org/packages/chimera/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.12 | Source Archive |