Index

C

convert() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method) convert_peakview_to_openswath() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method)

create_calibration() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview class method) create_decoys() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method)

D

DROP_TEXT (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute)

F

filter_and_normalise_openswath() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method)

O

open_peak_view() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method) openmstoffee::HDF5ChromatogramConsumer (C++ class) openmstoffee::HDF5ChromatogramConsumer::chromatogramToHDF5 (C++ function) openmstoffee::HDF5ChromatogramConsumer::ChromatogramType (C++ type) openmstoffee::HDF5ChromatogramConsumer::consumeChromatogram (C++ function) openmstoffee::HDF5ChromatogramConsumer::consumeSpectrum (C++ function) openmstoffee::HDF5ChromatogramConsumer::HDF5ChromatogramConsumer (C++ function) openmstoffee::HDF5ChromatogramConsumer::MapType (C++ type) openmstoffee::HDF5ChromatogramConsumer::setExpectedSize (C++ function) openmstoffee::HDF5ChromatogramConsumer::setExperimentalSettings (C++ function) openmstoffee::HDF5ChromatogramConsumer::SpectrumType (C++ type) openmstoffee::HDF5ChromatogramConsumer::~HDF5ChromatogramConsumer (C++ function) openmstoffee::OpenMSToffeeWorkflow (C++ class) openmstoffee::OpenMSToffeeWorkflow::FileArguments (C++ class) openmstoffee::OpenMSToffeeWorkflow::FileArguments::alignmentTSVFilePath (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileArguments::format (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileArguments::inputRTTrafoXML (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileArguments::outputFilePath (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileArguments::outputRTTrafoXML (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileArguments::srlFilePath (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileArguments::toffeeFilePath (C++ member) openmstoffee::OpenMSToffeeWorkflow::FileFormat (C++ enum)

openmstoffee::OpenMSToffeeWorkflow::OpenMSToffeeWorkflow (C++ function) openmstoffee::OpenMSToffeeWorkflow::SQLITE (C++ enumerator) openmstoffee::OpenMSToffeeWorkflow::TSV (C++ enumerator) openmstoffee::RTNormalisation (C++ class) openmstoffee::RTNormalisation::calculateAndSaveToFile (C++ function) openmstoffee::RTNormalisation::calculateNormalisation (C++ function) openmstoffee::RTNormalisation::calculateNormalisationFromFile (C++ function) openmstoffee::RTNormalisation::defaultMinCoverage (C++ function) openmstoffee::RTNormalisation::defaultMinRSquared (C++ function) openmstoffee::RTNormalisation::defaultMzCorrectionFunction (C++ function) openmstoffee::RTNormalisation::defaultNormalisationParams (C++ function) openmstoffee::RTNormalisation::RTNormalisation (C++ function) openmstoffee::RTNormalisation::saveToFile (C++ function) openmstoffee::RTNormalisation::updateChromExtractParams (C++ function) openmstoffee::RTNormalisation::updateFeatureFinderParams (C++ function) openmstoffee::RTNormalisation::updateMinCoverage (C++ function) openmstoffee::RTNormalisation::updateMinRSquared (C++ function) openmstoffee::RTNormalisation::updateMzCorrectionFunction (C++ function) openmstoffee::RTNormalisation::updateNormalisationParams (C++ function) OPENSWATH_INDEX_COLS (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute) OPENSWATH_SORT_ASCENDING (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute) OPENSWATH_SORT_COLS (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute) OpenSwathLibraryFromPeakview (class in OpenMSToffee.srl_peakview_to_openms)

P

PEAKVIEW_HEADERS (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute)

PEAKVIEW_RTCAL_PROTEIN (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute) PV_TO_OS_COL_MAPPING (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview attribute)

R

remove_minimum_fragments() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method)

rename_modifications() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview method)

S

set_stream_logger() (in module OpenMSToffee.log)

split_to_srl_and_alignment() (OpenMSToffee.srl_peakview_to_openms.OpenSwathLibraryFromPeakview class method)