File List

Here is a list of all files with brief descriptions:

[detail level 1234567]

▼ pwiz
▼ analysis
► chromatogram_processing
ChromatogramList_Filter.hpp
ChromatogramList_FilterTest.cpp
ChromatogramList_LockmassRefiner.hpp
ChromatogramList_LockmassRefinerTest.cpp
ChromatogramList_SavitzkyGolaySmoother.hpp
ChromatogramList_XICGenerator.hpp
ChromatogramListFactory.hpp
ChromatogramListFactoryTest.cpp
ChromatogramListWrapper.hpp
ChromatogramListWrapperTest.cpp
SavitzkyGolaySmoother.hpp
SavitzkyGolaySmootherTest.cpp
► common
CwtPeakDetector.hpp
CwtPeakDetectorTest.cpp
DataFilter.hpp
ExtraZeroSamplesFilter.hpp
ExtraZeroSamplesFilterTest.cpp
LocalMaximumPeakDetector.hpp
LocalMaximumPeakDetectorTest.cpp
PeakDetector.hpp
SavitzkyGolaySmoother.hpp
SavitzkyGolaySmootherTest.cpp
Smoother.hpp
WhittakerSmoother.hpp
WhittakerSmootherTest.cpp
ZeroSampleFiller.hpp
ZeroSampleFillerTest.cpp
► demux
CubicHermiteSpline.hpp
CubicHermiteSplineTest.cpp
DemuxDebugReader.hpp
DemuxDebugReadWriteTest.cpp
DemuxDebugWriter.hpp
DemuxHelpers.hpp	Helper functions for demultiplexing Helper functions include nice methods of accessing CV parameters and other generally useful functions
DemuxHelpersTest.cpp
DemuxSolver.hpp
DemuxSolverTest.cpp
DemuxTypes.hpp
EnumConstantNotPresentException.hpp
IDemultiplexer.hpp
IInterpolation.hpp
IPrecursorMaskCodec.hpp
MatrixIO.hpp
MatrixIOTest.cpp
MSXDemultiplexer.hpp
OverlapDemultiplexer.hpp
PrecursorMaskCodec.hpp
SpectrumPeakExtractor.hpp
SpectrumPeakExtractorTest.cpp
► frequency
DerivativeTest.hpp
FrequencyEstimator.hpp
FrequencyEstimatorPhysicalModel.hpp
FrequencyEstimatorPhysicalModelTest.cpp
FrequencyEstimatorSimple.hpp
FrequencyEstimatorSimpleTest.cpp
MagnitudeLorentzian.hpp
MagnitudeLorentzianTest.cpp
MagnitudeLorentzianTestData.hpp
ParameterEstimator.hpp
ParametrizedFunction.hpp
ParametrizedFunctionTest.cpp
PeakDetector.hpp
PeakDetectorMatchedFilter.hpp
PeakDetectorMatchedFilterTest.cpp
PeakDetectorMatchedFilterTestData.hpp
PeakDetectorNaive.hpp
PeakDetectorNaiveTest.cpp
TruncatedLorentzian.hpp
TruncatedLorentzianEstimator.hpp
TruncatedLorentzianParameters.hpp
TruncatedLorentzianParametersTest.cpp
TruncatedLorentzianTest.cpp
► passive
MetadataReporter.hpp
MSDataAnalyzer.hpp
MSDataAnalyzerTest.cpp
MSDataCache.hpp
MSDataCacheTest.cpp
PepXMLCat.hpp
RegionAnalyzer.hpp
RegionSIC.hpp
RegionSlice.hpp
RegionTIC.hpp
RunSummary.hpp
SpectrumBinaryData.hpp
SpectrumTable.hpp
TabularConfig.hpp
► peakdetect
FeatureDetector.hpp
FeatureDetectorPeakel.hpp
FeatureDetectorPeakelTest.cpp
FeatureDetectorSimple.hpp
FeatureDetectorSimpleTest.cpp
FeatureDetectorTuningTest.cpp
FeatureModeler.hpp
FeatureModelerTest.cpp
MZRTField.hpp
MZRTFieldTest.cpp
Noise.hpp
NoiseTest.cpp
PeakelGrower.hpp
PeakelGrowerTest.cpp
PeakelPicker.hpp
PeakelPickerTest.cpp
PeakExtractor.hpp
PeakExtractorTest.cpp
PeakFamilyDetector.hpp
PeakFamilyDetectorFT.hpp
PeakFamilyDetectorFTTest.cpp
PeakFinder.hpp
PeakFinderTest.cpp
PeakFitter.hpp
PeakFitterTest.cpp
► peptideid
PeptideID.hpp
PeptideID_flat.hpp
PeptideID_flatTest.cpp
PeptideID_pepXML.hpp
PeptideID_pepXMLTest.cpp
PeptideIDMap.hpp
PeptideIDMapTest.cpp
► proteome_processing
ProteinList_DecoyGenerator.hpp
ProteinList_DecoyGeneratorTest.cpp
ProteinList_Filter.hpp
ProteinList_FilterTest.cpp
ProteinListFactory.hpp
ProteinListFactoryTest.cpp
► spectrum_processing
MS2Deisotoper.hpp
MS2DeisotoperTest.cpp
MS2NoiseFilter.hpp
PrecursorMassFilter.hpp
PrecursorRecalculator.hpp
PrecursorRecalculatorDefault.hpp
PrecursorRecalculatorDefaultTest.cpp
SpectrumList_3D.hpp
SpectrumList_3D_Test.cpp
SpectrumList_ChargeFromIsotope.hpp
SpectrumList_ChargeFromIsotopeTest.cpp
SpectrumList_ChargeStateCalculator.hpp
SpectrumList_ChargeStateCalculatorTest.cpp
SpectrumList_Demux.hpp
SpectrumList_DemuxTest.cpp
SpectrumList_Filter.hpp
SpectrumList_FilterTest.cpp
SpectrumList_IonMobility.hpp
SpectrumList_IonMobility_Test.cpp
SpectrumList_LockmassRefiner.hpp
SpectrumList_LockmassRefinerTest.cpp
SpectrumList_MetadataFixer.hpp
SpectrumList_MetadataFixerTest.cpp
SpectrumList_MZRefiner.hpp
SpectrumList_MZRefinerTest.cpp
SpectrumList_MZWindow.hpp
SpectrumList_MZWindowTest.cpp
SpectrumList_PeakFilter.hpp
SpectrumList_PeakFilterTest.cpp
SpectrumList_PeakPicker.hpp
SpectrumList_PrecursorRecalculator.hpp
SpectrumList_PrecursorRecalculatorTest.cpp
SpectrumList_PrecursorRefine.hpp
SpectrumList_PrecursorRefineTest.cpp
SpectrumList_ScanSummer.hpp
SpectrumList_ScanSummerTest.cpp
SpectrumList_Smoother.hpp
SpectrumList_Sorter.hpp
SpectrumList_SorterTest.cpp
SpectrumList_TitleMaker.hpp
SpectrumList_ZeroSamplesFilter.hpp
SpectrumListFactory.hpp
SpectrumListFactoryTest.cpp
ThresholdFilter.hpp
Version.hpp
▼ data
► common
BinaryIndexStream.hpp
BinaryIndexStreamTest.cpp
cv.hpp
cvtest.cpp
CVTranslator.hpp
CVTranslatorTest.cpp
diff_std.hpp
diff_std_test.cpp
Index.hpp
MemoryIndex.hpp
MemoryIndexTest.cpp
obo.hpp
obotest.cpp
ParamTypes.hpp
ParamTypesTest.cpp
Unimod.hpp
UnimodTest.cpp
► identdata
DefaultReaderList.hpp
DelimReader.hpp
DelimWriter.hpp
Diff.hpp
DiffTest.cpp
examples.hpp
ExtendedReadTest.cpp
IdentData.hpp
IdentDataFile.hpp
IdentDataTest.cpp
IO.hpp
IOTest.cpp
KwCVMap.hpp
KwCVMapTest.cpp
MascotReader.hpp
MzidPredicates.hpp
Pep2MzIdent.hpp
Pep2MzIdentTest.cpp
Reader.hpp
ReaderTest.cpp
References.hpp
ReferencesTest.cpp
Serializer_mzid.hpp
Serializer_mzid_Test.cpp
Serializer_pepXML.hpp
Serializer_pepXML_Test.cpp
Serializer_protXML.hpp
Serializer_protXML_Test.cpp
Serializer_Text.hpp
Serializer_Text_Test.cpp
TextWriter.hpp
Version.hpp
► misc
CalibrationParameters.hpp
CalibrationParametersTest.cpp
FrequencyData.hpp
FrequencyDataTest.cpp
FrequencyDataTestData.hpp
MinimumPepXML.hpp
MinimumPepXMLTest.cpp
PeakData.hpp
PeakDataTest.cpp
SampleDatum.hpp
SampleDatumTest.cpp
► msdata
BinaryDataEncoder.hpp
BinaryDataEncoderTest.cpp
ChromatogramList_mzML.hpp
ChromatogramList_mzML_Test.cpp
ChromatogramListBase.hpp
ChromatogramListBaseTest.cpp
DefaultReaderList.hpp
Diff.hpp
DiffTest.cpp
examples.hpp
Index_mzML.hpp
IO.hpp
IOTest.cpp
LegacyAdapter.hpp
LegacyAdapterTest.cpp
MemoryMRUCache.hpp
MSData.hpp
MSDataFile.hpp
MSDataFileTest.cpp
MSDataMerger.hpp
MSDataMergerTest.cpp
MSDataTest.cpp
MSnReaderTest.cpp
MSNumpress.hpp
Reader.hpp
ReaderTest.cpp
References.hpp
ReferencesTest.cpp
Serializer_MGF.hpp
Serializer_MGF_Test.cpp
Serializer_MSn.hpp
Serializer_MSn_Test.cpp
Serializer_mzML.hpp
Serializer_mzML_Test.cpp
Serializer_mzXML.hpp
Serializer_mzXML_Test.cpp
SHA1OutputObserver.hpp
SpectrumInfo.hpp
SpectrumInfoTest.cpp
SpectrumIterator.hpp
SpectrumIteratorTest.cpp
SpectrumList_BTDX.hpp
SpectrumList_MGF.hpp
SpectrumList_MGF_Test.cpp
SpectrumList_MSn.hpp
SpectrumList_MSn_Test.cpp
SpectrumList_mzML.hpp
SpectrumList_mzML_Test.cpp
SpectrumList_mzXML.hpp
SpectrumList_mzXML_Test.cpp
SpectrumListBase.hpp
SpectrumListBaseTest.cpp
SpectrumListCache.hpp
SpectrumListCacheTest.cpp
SpectrumListWrapper.hpp
SpectrumListWrapperTest.cpp
SpectrumWorkerThreads.hpp
TextWriter.hpp
Version.hpp
► proteome
AminoAcid.hpp
AminoAcidTest.cpp
DefaultReaderList.hpp
Diff.hpp
DiffTest.cpp
Digestion.hpp
DigestionTest.cpp
examples.hpp
Modification.hpp
Peptide.hpp
PeptideTest.cpp
ProteinListCache.hpp
ProteinListCacheTest.cpp
ProteinListWrapper.hpp
ProteinListWrapperTest.cpp
ProteomeData.hpp
ProteomeDataFile.hpp
ProteomeDataFileTest.cpp
ProteomeDataTest.cpp
Reader.hpp
Reader_FASTA.hpp
ReaderTest.cpp
Serializer_FASTA.hpp
Serializer_FASTA_Test.cpp
TextWriter.hpp
Version.hpp
► tradata
DefaultReaderList.hpp
Diff.hpp
DiffTest.cpp
examples.hpp
IO.hpp
IOTest.cpp
Reader.hpp
ReaderTest.cpp
References.hpp
ReferencesTest.cpp
Serializer_traML.hpp
Serializer_traML_Test.cpp
TextWriter.hpp
TraData.hpp
TraDataFile.hpp
TraDataFileTest.cpp
TraDataTest.cpp
Version.hpp
► vendor_readers
► ABI
► T2D
Reader_ABI_T2D.hpp
Reader_ABI_T2D_Test.cpp
SpectrumList_ABI_T2D.hpp
ChromatogramList_ABI.hpp
Reader_ABI.hpp
Reader_ABI_Detail.hpp
Reader_ABI_Test.cpp
SpectrumList_ABI.hpp
► Agilent
ChromatogramList_Agilent.hpp
Reader_Agilent.hpp
Reader_Agilent_Test.cpp
SpectrumList_Agilent.hpp
► Bruker
ChromatogramList_Bruker.hpp
Reader_Bruker.hpp
Reader_Bruker_Detail.hpp
Reader_Bruker_Test.cpp
SpectrumList_Bruker.hpp
► Shimadzu
ChromatogramList_Shimadzu.hpp
Reader_Shimadzu.hpp
SpectrumList_Shimadzu.hpp
► Thermo
ChromatogramList_Thermo.hpp
Reader_Thermo.hpp
Reader_Thermo_Detail.hpp
Reader_Thermo_Test.cpp
SpectrumList_Thermo.hpp
► UIMF
Reader_UIMF.hpp
SpectrumList_UIMF.hpp
► UNIFI
Reader_UNIFI.hpp
Reader_UNIFI_Detail.hpp
SpectrumList_UNIFI.hpp
► Waters
ChromatogramList_Waters.hpp
Reader_Waters.hpp
Reader_Waters_Detail.hpp
Reader_Waters_Test.cpp
SpectrumList_Waters.hpp
ExtendedReaderList.hpp
▼ utility
► chemistry
Chemistry.hpp
ChemistryData.hpp
ChemistryTest.cpp
Ion.hpp
IsotopeCalculator.hpp
IsotopeCalculatorTest.cpp
IsotopeEnvelopeEstimator.hpp
IsotopeEnvelopeEstimatorTest.cpp
IsotopeTable.hpp
IsotopeTableTest.cpp
MZTolerance.hpp
MZToleranceTest.cpp
► findmf
► base
► base
► utilities
base.hpp
interpolation.hpp
base.hpp
basetest.cpp
constants.hpp
copy_iftest.cpp
copyif.hpp
cumsum.hpp
cumsumtest.cpp
diff.hpp
difftest.cpp
equispaceinterpolationtest.cpp
interpolate.hpp
scale.hpp
► filter
► utilities
gauss.hpp
mexhat.hpp
preparedata.hpp
filter.hpp
filterutilstest.cpp
gaussfilter.hpp
gaussfiltertest.cpp
► ms
peakpickerqtof.hpp
simplepicker.hpp
simplepickertest.cpp
► resample
► utilities
determinebinwidth.hpp
bin1d.hpp
breakspec.hpp
bucket1d.hpp
bucket1dtest.cpp
convert2dense.hpp
convert2densetest.cpp
determinbinwithtest.cpp
determinebinwidth.hpp
masscomparefunctors.hpp
► math
erf.hpp
erfTest.cpp
HouseholderQR.hpp
HouseholderQRTest.cpp
LinearLeastSquares.hpp
LinearLeastSquaresTest.cpp
LinearSolver.hpp
LinearSolverTest.cpp
MatchedFilter.hpp
MatchedFilterTest.cpp
MatrixInverse.hpp
OrderedPair.hpp
OrderedPairTest.cpp
Parabola.hpp
ParabolaTest.cpp
qr.hpp
qrTest.cpp
round.hpp
Stats.hpp
StatsTest.cpp
Types.hpp
► minimxml
SAXParser.hpp
SAXParserTest.cpp
XMLWriter.hpp
XMLWriterTest.cpp
► misc
almost_equal.hpp
almost_equal_test.cpp
Base64.hpp
Base64Test.cpp
BinaryData.hpp
BinaryDataTest.cpp
CharIndexedVector.hpp
ClickwrapPrompter.hpp
ClickwrapPrompterTest.cpp
Container.hpp
cpp_cli_utilities.hpp
DateTime.hpp
DateTimeTest.cpp
endian.hpp
endian_test.cpp
Environment.hpp
Exception.hpp
ExceptionTest.cpp
Export.hpp
FailTest.cpp
Filesystem.hpp
FilesystemTest.cpp
Image.hpp
IntegerSet.hpp
IntegerSetTest.cpp
IterationListener.hpp
IterationListenerTest.cpp
mru_list.hpp
mru_list_test.cpp
MSIHandler.hpp
Once.hpp
optimized_lexical_cast.hpp
pinned_gcroot.h
random_access_compressed_ifstream.hpp
SHA1.h
SHA1_ostream.hpp
SHA1_ostream_test.cpp
SHA1Calculator.hpp
SHA1CalculatorTest.cpp
shared_map.hpp
Singleton.hpp
Std.hpp
Stream.hpp
String.hpp
TabReader.hpp
TabReaderTest.cpp
Timer.hpp
unit.hpp
VendorReaderTestHarness.hpp
virtual_map.hpp
► proteome
IPIFASTADatabase.hpp
IPIFASTADatabaseTest.cpp
Version.hpp
mainpage.hpp