call_peaks_with_GLM	call_peaks_with_GLM
convertTxDb	convertTxDb
ctest	ctest
decision_deseq2	decision_deseq2
disj_background	disj_background
estimateSeqDepth	estimateSeqDepth-methods
estimateSeqDepth,SummarizedExomePeak-method	estimateSeqDepth-methods
estimateSeqDepth-methods	estimateSeqDepth-methods
exomePeak2	exomePeak2
exomePeak2Results	exomePeak2Results-methods
exomePeak2Results,SummarizedExomePeak-method	exomePeak2Results-methods
exomePeak2Results-methods	exomePeak2Results-methods
exomePeak2Results<-	exomePeak2Results-methods
exomePeak2Results<-,SummarizedExomePeak-method	exomePeak2Results-methods
exomePeakCalling	exomePeakCalling-methods
exomePeakCalling,MeripBamFileList-method	exomePeakCalling-methods
exomePeakCalling-methods	exomePeakCalling-methods
exome_bins_from_txdb	exome_bins_from_txdb
exonPlot	exonPlot
exons_by_unique_gene	exons_by_unique_gene
exportResults	exportResults-methods
exportResults,SummarizedExomePeak-method	exportResults-methods
exportResults-methods	exportResults-methods
flank_on_exons	flank_on_exons
GCsizeFactors	GCsizeFactors-methods
GCsizeFactors,SummarizedExomePeak-method	GCsizeFactors-methods
GCsizeFactors-methods	GCsizeFactors-methods
GCsizeFactors<-	GCsizeFactors-methods
GCsizeFactors<-,SummarizedExomePeak-method	GCsizeFactors-methods
GC_content_over_grl	GC_content_over_grl
glmDM	glmDM-methods
glmDM,SummarizedExomePeak-method	glmDM-methods
glmDM-methods	glmDM-methods
glmM	glmM-methods
glmM,SummarizedExomePeak-method	glmM-methods
glmM-methods	glmM-methods
GLM_inference	GLM_inference
LibraryType	LibraryType-methods
LibraryType,MeripBamFileList-method	LibraryType-methods
LibraryType-methods	LibraryType-methods
mclust_bg	mclust_bg
MeripBamFileList	MeripBamFileList-class
MeripBamFileList-class	MeripBamFileList-class
normalizeGC	normalizeGC-methods
normalizeGC,SummarizedExomePeak-method	normalizeGC-methods
normalizeGC-methods	normalizeGC-methods
Parameter	Parameter-methods
Parameter,MeripBamFileList-method	Parameter-methods
Parameter-methods	Parameter-methods
plotExonLength	plotExonLength-methods
plotExonLength,SummarizedExomePeak-method	plotExonLength-methods
plotExonLength-methods	plotExonLength-methods
plotLfcGC	plotLfcGC-methods
plotLfcGC,SummarizedExomePeak-method	plotLfcGC-methods
plotLfcGC-methods	plotLfcGC-methods
plotReadsGC	plotReadsGC-methods
plotReadsGC,SummarizedExomePeak-method	plotReadsGC-methods
plotReadsGC-methods	plotReadsGC-methods
plotSizeFactors	plotSizeFactors-methods
plotSizeFactors,SummarizedExomePeak-method	plotSizeFactors-methods
plotSizeFactors-methods	plotSizeFactors-methods
quiet	quiet
reads_five_POS	reads_five_POS
reads_five_POS_rev	reads_five_POS_rev
reduce_peaks	reduce_peaks
remove_introns	remove_introns
replace_bg	replace_bg
Results	Results-methods
Results,SummarizedExomePeak-method	Results-methods
Results-methods	Results-methods
scanMeripBAM	scanMeripBAM
sort_sep	sort_sep
split_by_name	split_by_name
SummarizedExomePeak	SummarizedExomePeak-class
SummarizedExomePeak-class	SummarizedExomePeak-class
