Investigates allele specific expression


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Documentation for package ‘AllelicImbalance’ version 1.2.0

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AllelicImbalance-package A package meant to provide all basic functions for high-throughput allele specific expression analysis
alleleCounts ASEset objects
alleleCounts-method ASEset objects
AllelicImbalance A package meant to provide all basic functions for high-throughput allele specific expression analysis
ASEset ASEset objects
ASEset-barplot barplot ASEset objects
ASEset-class ASEset objects
ASEset-locationplot locationplot ASEset objects
ASEsetFromCountList Initialize ASEset
barplot barplot ASEset objects
barplot-method barplot ASEset objects
binom.test-method binomial test
chisq.test-method chi-square test
fraction ASEset objects
fraction-method ASEset objects
getAlleleCounts snp count data
getAlleleCounts2 snp count data
getAnnotationDataFrame AnnotationDb wrappers
getAreaFromGeneNames Get Gene Area
getCDSFromAnnotation AnnotationDb wrappers
getCDSVector AnnotationDb wrappers
getDefaultMapBiasExpMean Map Bias
getDefaultMapBiasExpMean3D Map Bias
getExonsFromAnnotation AnnotationDb wrappers
getExonsVector AnnotationDb wrappers
getGenesFromAnnotation AnnotationDb wrappers
getGenesVector AnnotationDb wrappers
getSnpIdFromLocation Get rsIDs from locations of SNP
getTranscriptsFromAnnotation AnnotationDb wrappers
getTranscriptsVector AnnotationDb wrappers
GRvariants GRvariants object
impBamGAL Import Bam
impBamGRL Import Bam
impBcfGR Import Bcf Selection
impBcfGRL Import Bcf Selection
initialize-ASEset Initialize ASEset
locationplot locationplot ASEset objects
locationplot-method locationplot ASEset objects
mapBias ASEset objects
mapBias-method ASEset objects
reads reads object
scanForHeterozygotes scanForHeterozygotes