Transcriptome Analysis of Differential Allelic Representation

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Documentation for package ‘tadar’ version 1.6.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

assignFeatureDar	Assign DAR values to genomic features
assignFeatureDar-method	Assign DAR values to genomic features
chr1_genes	Genomic feature example data
chr1_tt	Differential expression example data
countAlleles	Count alleles within each experimental group
countAlleles-method	Count alleles within each experimental group
countsToProps	Convert allele counts to proportions
countsToProps-method	Convert allele counts to proportions
dar	Calculate Differential Allelic Representation (DAR)
dar-method	Calculate Differential Allelic Representation (DAR)
filterLoci	Filter loci
filterLoci-method	Filter loci
flipRanges	Convert DAR origin ranges to DAR region ranges, or vice versa
flipRanges-method	Convert DAR origin ranges to DAR region ranges, or vice versa
modP	DAR-moderated _p_-values
modP-method	DAR-moderated _p_-values
plotChrDar	Plot DAR across a chromosome
plotChrDar-method	Plot DAR across a chromosome
plotDarECDF	Plot the Empirical Cumulative Distribution Function of DAR
plotDarECDF-method	Plot the Empirical Cumulative Distribution Function of DAR
readGenotypes	Read genotypes from a VCF file
readGenotypes-method	Read genotypes from a VCF file
unphaseGT	Unphase genotypes
unphaseGT-method	Unphase genotypes