Package: GeneRegionScan 1.63.0
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:
GeneRegionScan_1.63.0.tar.gz
GeneRegionScan_1.63.0.zip(r-4.5)GeneRegionScan_1.63.0.zip(r-4.4)GeneRegionScan_1.63.0.zip(r-4.3)
GeneRegionScan_1.63.0.tgz(r-4.4-any)GeneRegionScan_1.63.0.tgz(r-4.3-any)
GeneRegionScan_1.63.0.tar.gz(r-4.5-noble)GeneRegionScan_1.63.0.tar.gz(r-4.4-noble)
GeneRegionScan_1.63.0.tgz(r-4.4-emscripten)GeneRegionScan_1.63.0.tgz(r-4.3-emscripten)
GeneRegionScan.pdf |GeneRegionScan.html✨
GeneRegionScan/json (API)
| # Install 'GeneRegionScan' in R: |
| install.packages('GeneRegionScan', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- exampleProbeLevelSet - Example Dataset of class 'ProbeLevelSet'
- genomic - Genomic sequence of gene in ProbeLevelSet
- mrna - MRNA sequence of gene in ProbeLevelSet
On BioConductor:GeneRegionScan-1.63.0(bioc 3.21)GeneRegionScan-1.62.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
microarraydataimportsnponechannelvisualization
Last updated 2 months agofrom:1cf7743d6c. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 08 2024 |
| R-4.5-win | NOTE | Dec 08 2024 |
| R-4.5-linux | NOTE | Dec 08 2024 |
| R-4.4-win | NOTE | Dec 08 2024 |
| R-4.4-mac | NOTE | Dec 08 2024 |
| R-4.3-win | NOTE | Dec 08 2024 |
| R-4.3-mac | NOTE | Dec 08 2024 |
Exports:addSnpPdataexcludeDoubleMatchingProbesexonStructurefindProbePositionsfindSequenceInGenomegeneRegionScangetLocalMetaprobeIntensitiesgetLocalProbeIntensitiesgetMetaprobesetsFromRegionOfInterestgetProbesetsFromMetaprobesetgetProbesetsFromRegionOfInterestgetSequencegetServerProbeIntensitiesplotCoexpressionplotOnGenetranslateSampleNames
Dependencies:affxparseraskpassBiobaseBiocGenericsBiostringscrayoncurlgenericsGenomeInfoDbGenomeInfoDbDatahttrIRangesjsonlitemimeopensslR6RColorBrewerS4VectorssysUCSC.utilsXVectorzlibbioc
