Here is a list of all file members with links to the files they belong to:

- _ -

• __has_cpp_attribute : robin_hood.h

- b -

• barcode : utils.h
• barcodes_Haplotagging_A : barcodesList.h
• barcodes_Haplotagging_B : barcodesList.h
• barcodes_Haplotagging_C : barcodesList.h
• barcodes_Haplotagging_D : barcodesList.h
• barcodes_stLFR : barcodesList.h
• BarcodesIndex : indexManagementFastq.h
• BarcodesOffsetsIndex : indexManagementBam.h
• BarcodesPositionsIndex : indexManagementBam.h
• BUFSIZE : indexManagementFastq.h
• buildGzIndex() : gzIndex.h
• buildGzIndex_Stream() : gzIndex.h
• BXTAG : utils.h

- c -

• CHUNK : gzIndex.h
• compareContig() : barcodesComparison.h
• compareContig_BamReader() : barcodesComparison.h
• compareContigs() : barcodesComparison.h
• compareRegions() : barcodesComparison.h
• computeCommonBarcodesCounts() : barcodesComparison.h
• computePairwiseCommonBarcounts() : barcodesComparison.h
• convertToSam() : utils.h
• countCommonBarcodes() : barcodesComparison.h

- d -

• deserializeGzIndex() : gzIndex.h
• determineSequencingTechnology() : utils.h

- e -

• extract() : gzIndex.h
• extract_Stream() : gzIndex.h
• extractBarcodesAndCommonBarcodesCounts() : computeStats.h
• extractBarcodesBitsFromBAM() : barcodesExtraction.h
• extractBarcodesBitsFromBAMWithDuplicates() : barcodesExtraction.h
• extractBarcodesBitsFromRegion() : barcodesExtraction.h
• extractBarcodesBitsFromRegion_BamReader() : barcodesExtraction.h
• extractBarcodesBitsFromRegionWithDuplicates() : barcodesExtraction.h
• extractBarcodesBitsFromRegionWithDuplicates_BamReader() : barcodesExtraction.h
• extractBarcodesCountsPerRegion() : computeStats.h
• extractBarcodesSeqsFromBAM() : barcodesExtraction.h
• extractBarcodesSeqsFromBAMWithDuplicates() : barcodesExtraction.h
• extractBarcodesSeqsFromRegion() : barcodesExtraction.h
• extractBarcodesSeqsFromRegion_BamReader() : barcodesExtraction.h
• extractBarcodesSeqsFromRegionWithDuplicates() : barcodesExtraction.h
• extractBarcodesSeqsFromRegionWithDuplicates_BamReader() : barcodesExtraction.h
• extractCommonBarcodesCounts() : computeStats.h
• extractFastqReadFromOffset() : gzIndex.h
• extractGlobalStats() : computeStats.h
• extractRegions() : utils.h
• extractRegionsList() : utils.h

- f -

• freeGzIndex() : gzIndex.h

- h -

• Haplotagging : utils.h

- i -

• indexBarcodesFromFastq() : indexManagementFastq.h
• indexBarcodesFromFastqGz() : indexManagementFastq.h
• indexBarcodesOffsetsFromBam() : indexManagementBam.h
• indexBarcodesPositionsFromBam() : indexManagementBam.h
• isValidBarcode() : utils.h

- l -

• loadBarcodesIndex() : indexManagementFastq.h
• loadBarcodesOffsetsIndex() : indexManagementBam.h
• loadBarcodesPositionsIndex() : indexManagementBam.h
• local : gzIndex.h

- n -

• no_argument : utils.h

- o -

• optional_argument : utils.h

- r -

• required_argument : utils.h
• retrieveAlignmentsWithBarcode() : alignmentsRetrieval.h
• retrieveAlignmentsWithBarcode_BamReader() : alignmentsRetrieval.h
• retrieveAlignmentsWithBarcodeBits() : alignmentsRetrieval.h
• retrieveAlignmentsWithBarcodeBits_BamReader() : alignmentsRetrieval.h
• retrieveAlignmentsWithBarcodes() : alignmentsRetrieval.h
• retrieveAlignmentsWithBarcodes_BamReader() : alignmentsRetrieval.h
• retrieveNucleotidesContent() : utils.h
• retrieveReadsWithBarcode() : readsRetrieval.h
• retrieveReadsWithBarcode_Gzip() : readsRetrieval.h
• retrieveReadsWithBarcode_Gzip_Stream_Index() : readsRetrieval.h
• retrieveReadsWithBarcode_Stream() : readsRetrieval.h
• retrieveReadsWithBarcodeBits() : readsRetrieval.h
• retrieveReadsWithBarcodeBits_Gzip() : readsRetrieval.h
• retrieveReadsWithBarcodeBits_Gzip_Stream_Index() : readsRetrieval.h
• retrieveReadsWithBarcodeBits_Stream() : readsRetrieval.h
• retrieveReadsWithBarcodes() : readsRetrieval.h
• retrieveReadsWithBarcodes_Gzip() : readsRetrieval.h
• retrieveReadsWithBarcodes_Gzip_Stream_Index() : readsRetrieval.h
• retrieveReadsWithBarcodes_Stream() : readsRetrieval.h
• ROBIN_HOOD : robin_hood.h
• ROBIN_HOOD_COUNT : robin_hood.h
• ROBIN_HOOD_COUNT_LEADING_ZEROES : robin_hood.h
• ROBIN_HOOD_COUNT_TRAILING_ZEROES : robin_hood.h
• ROBIN_HOOD_HASH_INT : robin_hood.h
• ROBIN_HOOD_IS_TRIVIALLY_COPYABLE : robin_hood.h
• ROBIN_HOOD_LIKELY : robin_hood.h
• ROBIN_HOOD_LOG : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_BIG_ENDIAN : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_BITNESS : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_BROKEN_CONSTEXPR : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CLZ : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CTZ : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CXX : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CXX11 : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CXX14 : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CXX17 : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_CXX98 : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_FALLTHROUGH : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_HAS_EXCEPTIONS : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_HAS_NATIVE_WCHART : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_LITTLE_ENDIAN : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_NODISCARD : robin_hood.h
• ROBIN_HOOD_PRIVATE_DEFINITION_NOINLINE : robin_hood.h
• ROBIN_HOOD_TRACE : robin_hood.h
• ROBIN_HOOD_UNLIKELY : robin_hood.h
• ROBIN_HOOD_UNUSED : robin_hood.h
• ROBIN_HOOD_VERSION_MAJOR : robin_hood.h
• ROBIN_HOOD_VERSION_MINOR : robin_hood.h
• ROBIN_HOOD_VERSION_PATCH : robin_hood.h

- s -

• saveBarcodesIndex() : indexManagementFastq.h
• saveBarcodesOffsetsIndex() : indexManagementBam.h
• saveBarcodesPositionsIndex() : indexManagementBam.h
• SequencingTechnology : utils.h
• serializeGzIndex() : gzIndex.h
• SPAN : gzIndex.h
• splitString() : utils.h
• stLFR : utils.h
• stringToBamRegion() : utils.h
• stringToBarcode() : utils.h
• subcommandCompare() : compare.h
• subcommandExtract() : extract.h
• subcommandHelp() : help.h
• subcommandIndexBam() : indexBam.h
• subcommandIndexFastq() : indexFastq.h
• subcommandQueryBam() : queryBam.h
• subcommandQueryFastq() : queryFastq.h , queryFastq.cpp
• subcommandStats() : stats.h

- t -

• techno : utils.h
• TELLSeq : utils.h
• TenX : utils.h

- u -

• Undefined : utils.h

- v -

• VERSION : help.h

- w -

• WINSIZE : gzIndex.h