# GeneRegionScan

## Documentation for package ‘GeneRegionScan’ version 1.2.0

## User Guides and Package Vignettes

Read overview or browse directory.

## Help Pages

addSnpPdata | Add SNP data from hapmap-style data file to pData of ExpressionSet
addSnpPdata,ExpressionSet-method | Add SNP data from hapmap-style data file to pData of ExpressionSet
checkForFileInPath | Check For File In Path
doProbeLinear | Do Probe Linear
doProbeTTest | Do Probe T-Test
exampleProbeLevelSet | Example Dataset of class 'ProbeLevelSet'
excludeDoubleMatchingProbes | Exclude ProbeLevelSet probes that match more than once in genome
excludeDoubleMatchingProbes,ProbeLevelSet-method | Exclude ProbeLevelSet probes that match more than once in genome
exonStructure | Add exon-structure to plots
findSequenceInGenome | Find a sequence in genome
GeneRegionScan | Gene Region Scan
geneRegionScan | Gene Region Scan
geneRegionScan,ExpressionSet-method | Gene Region Scan
genomic | genomic sequence of gene in ProbeLevelSet
getLocalMetaprobeIntensities | Get Metaprobe Intensities locally
getLocalProbeIntensities | Get Probe Intensities locally
getMetaprobesetsFromRegionOfInterest | Get Meta Probe Set IDs From Region Of Interest
getProbeLevelAnnotationForExonArrays | Get ProbeLevel Annotation for Exon Arrays
getProbesetsFromRegionOfInterest | Get Probeset IDs From Region Of Interest
getSequence | Get Sequence from a ProbeLevelSet
getSequence,ProbeLevelSet-method | Get Sequence from a ProbeLevelSet
getServerProbeIntensities | Get Probe Intensities from a server
mrna | mRNA sequence of gene in ProbeLevelSet
plotCoexpression | Plot Coexpression of probes in a ProbeLevelSet
plotCoexpression,ExpressionSet-method | Plot Coexpression of probes in a ProbeLevelSet
plotOnGene | Plot probe level data on a gene
plotOnGene,ExpressionSet-method | Plot probe level data on a gene
plotStatistics | Plot Statistics
ProbeLevelSet | Class ProbeLevelSet
ProbeLevelSet-class | Class ProbeLevelSet
readGeneInput | Standardize reading of gene inputs
translateSampleNames | Translate sample names using translation file
translateSampleNames,ExpressionSet-method | Translate sample names using translation file