h5vc-package	h5vc-package
applyTallies	applyTallies
bases	mutationSpectrum
batchTallies	batchTallies
batchTallyParam	batchTallies
binnedCoverage	coverage
callDeletionsPaired	callVariants
callVariantsPaired	callVariants
callVariantsPairedFisher	callVariantsFisher
callVariantsSingle	callVariantsSingle
collectTallies	batchTallies
defineBlocks	helpers
encodeDNAString	helpers
formatGenomicPosition	helpers
geom_h5vc	geom_h5vc
getChromSize	helpers
getSampleData	getSampleData
h5dapply	h5dapply
h5readBlock	h5readBlock
h5vc	h5vc-package
mergeTallies	mergeTallies
mergeTallyFiles	mergeTallyFiles
mismatchPlot	mismatchPlot
mutationSpectrum	mutationSpectrum
plotMutationSpectrum	plotMutationSpectrum
prepareForHDF5	prepareForHDF5
prepareTallyFile	prepareTallyFile
rerunBatchTallies	batchTallies
resizeCohort	prepareTallyFile
setSampleData	getSampleData
tallyBAM	tallyBAM
variantCalls	mutationSpectrum
vcConfParams	callVariants
writeReference	writeReference
