This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see GeneRegionScan.
Bioconductor version: 3.11
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 (from within R,
enter citation("GeneRegionScan")
):
To install this package, start R (version "4.0") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("GeneRegionScan")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GeneRegionScan")
R Script | GeneRegionScan | |
Reference Manual |
biocViews | DataImport, Microarray, OneChannel, SNP, Software, Visualization |
Version | 1.44.0 |
In Bioconductor since | BioC 2.4 (R-2.9) (11.5 years) |
License | GPL (>= 2) |
Depends | methods, Biobase(>= 2.5.5), Biostrings |
Imports | S4Vectors(>= 0.9.25), Biobase(>= 2.5.5), affxparser, RColorBrewer, Biostrings |
LinkingTo | |
Suggests | BSgenome, affy, AnnotationDbi |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | GeneRegionScan_1.44.0.tar.gz |
Windows Binary | GeneRegionScan_1.44.0.zip |
macOS 10.13 (High Sierra) | GeneRegionScan_1.44.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/GeneRegionScan |
Source Repository (Developer Access) | git clone [email protected]:packages/GeneRegionScan |
Package Short Url | https://bioconductor.org/packages/GeneRegionScan/ |
Package Downloads Report | Download Stats |
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