Index

F

Finder (C function) ft::Finder::Finder (C function), [1] ft::Finder::multipleIndexesParallelSearch (C function) ft::Finder::multipleIndexesSequentialSearch (C function) ft::Finder::overrideFmIndex (C function) ft::Finder::parallelSearch (C function) ft::Finder::searchMonoIndex (C function) ft::Finder::searchMultipleIndexes (C function) ft::Finder::sequentialSearch (C function) ft::FTSearch::FTSearch (C function) ft::FTSearch::init (C function) ft::FTSearch::overrideFinder (C function) ft::FTSearch::overrideKmerGenerator (C function) ft::FTSearch::overrideQueryExtractor (C function) ft::FTSearch::overrideResultProcessor (C function) ft::FTSearch::overrideStats (C function) ft::FTSearch::overrideUtils (C function) ft::FTSearch::overrideWriterBridge (C function) ft::KmerGenerator::addtoKmerMap (C function) ft::KmerGenerator::genCenteredSearchStrings (C function) ft::KmerGenerator::genKmerMap (C function) ft::KmerGenerator::genQueryKmers (C function) ft::KmerGenerator::genSearchKmers (C function) ft::KmerGenerator::genSlidingSearchStrings (C function) ft::KmerGenerator::KmerGenerator (C function) ft::KmerGenerator::overrideStats (C function) ft::QueryExtractor::getInputQueries (C function)

ft::QueryExtractor::getInputQueriesRoutine (C function) ft::QueryExtractor::getStartAndEndPointSequences (C function) ft::QueryExtractor::overrideUtils (C function) ft::QueryExtractor::QueryExtractor (C function) ft::ResultProcessor::getIndexCounts (C function) ft::ResultProcessor::overrideStats (C function) ft::ResultProcessor::overrideUtils (C function) ft::ResultProcessor::processIndexPos (C function) ft::ResultProcessor::processResults (C function) ft::ResultProcessor::ResultProcessor (C function) ft::Stats::printKmerCountToFile (C function) ft::Stats::printKmerSearchTimeToFile (C function) ft::Stats::printMatchingReadsToFile (C function) ft::Stats::Stats (C function) ft::Utils::convertIndexPositionsToReadIDs (C function) ft::Utils::convertReadIDsToReadNames (C function) ft::Utils::fileIndexToQueryIndex (C function) ft::Utils::getSetOfIndexes (C function) ft::Utils::queryIndexToFileIndex (C function) ft::Utils::reverseComplement (C function) ft::Utils::split (C function) ft::Utils::trimmedReadFileName (C function) ft::Utils::Utils (C function) ft::WriterBridge::overrideUtils (C function) ft::WriterBridge::saveQueryOutput (C function) ft::WriterBridge::WriterBridge (C function) FTSearch (C function)

I

IFinder (C function)

K

KmerGenerator (C function)

Q

QueryExtractor (C function)

R

ResultProcessor (C function)

S

Stats (C function)

U

Utils (C function)

W

WriterBridge (C function)