Package: GeneRegionScan 1.61.0

Lasse Folkersen

GeneRegionScan: GeneRegionScan

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.

Authors:Lasse Folkersen, Diego Diez

GeneRegionScan_1.61.0.tar.gz
GeneRegionScan_1.61.0.zip(r-4.5)GeneRegionScan_1.61.0.zip(r-4.4)GeneRegionScan_1.61.0.zip(r-4.3)
GeneRegionScan_1.61.0.tgz(r-4.4-any)GeneRegionScan_1.61.0.tgz(r-4.3-any)
GeneRegionScan_1.61.0.tar.gz(r-4.5-noble)GeneRegionScan_1.61.0.tar.gz(r-4.4-noble)
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GeneRegionScan.pdf |GeneRegionScan.html✨
GeneRegionScan/json (API)

Peer review:

On BioConductor:GeneRegionScan-1.61.0(bioc 3.20)GeneRegionScan-1.60.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

16 exports 1.45 score 21 dependencies 3 mentions

Last updated 2 months agofrom:525824ad07

Exports:addSnpPdataexcludeDoubleMatchingProbesexonStructurefindProbePositionsfindSequenceInGenomegeneRegionScangetLocalMetaprobeIntensitiesgetLocalProbeIntensitiesgetMetaprobesetsFromRegionOfInterestgetProbesetsFromMetaprobesetgetProbesetsFromRegionOfInterestgetSequencegetServerProbeIntensitiesplotCoexpressionplotOnGenetranslateSampleNames

Dependencies:affxparseraskpassBiobaseBiocGenericsBiostringscrayoncurlGenomeInfoDbGenomeInfoDbDatahttrIRangesjsonlitemimeopensslR6RColorBrewerS4VectorssysUCSC.utilsXVectorzlibbioc