GeneRegionScan
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see GeneRegionScan.
GeneRegionScan
Bioconductor version: 3.9
A package with focus on analysis of discrete regions of the genome. This package is useful for investigation of one or a few genes using Affymetrix data, since it will extract probe level data using the Affymetrix Power Tools application and wrap these data into a ProbeLevelSet. A ProbeLevelSet directly extends the expressionSet, but includes additional information about the sequence of each probe and the probe set it is derived from. The package includes a number of functions used for plotting these probe level data as a function of location along sequences of mRNA-strands. This can be used for analysis of variable splicing, and is especially well suited for use with exon-array data.
Author: Lasse Folkersen, Diego Diez
Maintainer: Lasse Folkersen <lasfol at cbs.dtu.dk>
citation("GeneRegionScan")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GeneRegionScan")
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("GeneRegionScan")| GeneRegionScan | R Script | |
| Reference Manual |
Details
| biocViews | DataImport, Microarray, OneChannel, SNP, Software, Visualization |
| Version | 1.40.0 |
| In Bioconductor since | BioC 2.4 (R-2.9) (15 years) |
| License | GPL (>= 2) |
| Depends | methods, Biobase(>= 2.5.5), Biostrings |
| Imports | S4Vectors(>= 0.9.25), Biobase(>= 2.5.5), affxparser, RColorBrewer, Biostrings |
| System Requirements | |
| URL |
See More
| Suggests | BSgenome, affy, AnnotationDbi |
| 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 | GeneRegionScan_1.40.0.tar.gz |
| Windows Binary | GeneRegionScan_1.40.0.zip |
| Mac OS X 10.11 (El Capitan) | GeneRegionScan_1.40.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GeneRegionScan |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GeneRegionScan |
| Bioc Package Browser | https://code.bioconductor.org/browse/GeneRegionScan/ |
| Package Short Url | https://bioconductor.org/packages/GeneRegionScan/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |