SpectrumList implementation that assigns (probable) charge states to tandem mass spectra.
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#include <SpectrumList_ChargeStateCalculator.hpp>
List of all members.
Public Member Functions |
| SpectrumList_ChargeStateCalculator (const msdata::SpectrumListPtr &inner, bool overrideExistingChargeState=true, int maxMultipleCharge=3, int minMultipleCharge=2, double intensityFractionBelowPrecursorForSinglyCharged=0.9, bool makeMS2=false) |
virtual msdata::SpectrumPtr | spectrum (size_t index, bool getBinaryData=true) const |
| charge calculation requires binary data to function, so returned spectra will always provide the binary data
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| SpectrumListWrapper (const SpectrumListPtr &inner) |
virtual size_t | size () const |
| returns the number of spectra
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virtual bool | empty () const |
| returns true iff (size() == 0) and (dataProcessingPtr.get() == NULL)
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virtual const SpectrumIdentity & | spectrumIdentity (size_t index) const |
| access to a spectrum index
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virtual SpectrumPtr | spectrum (size_t index, DetailLevel detailLevel) const |
| retrieve a spectrum by index
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virtual const
boost::shared_ptr< const
DataProcessing > | dataProcessingPtr () const |
| returns the data processing affecting spectra retrieved through this interface
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virtual size_t | find (const std::string &id) const |
| find id in the spectrum index (returns size() on failure)
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virtual IndexList | findNameValue (const std::string &name, const std::string &value) const |
| find all spectrum indexes with specified name/value pair
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virtual IndexList | findSpotID (const std::string &spotID) const |
| find all spectrum indexes with spotID (returns empty vector on failure)
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virtual SpectrumPtr | spectrum (const SpectrumPtr &seed, bool getBinaryData) const |
| get a copy of the seed spectrum, optionally with its binary data populated this is useful for formats like mzML that can delay loading of binary data
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virtual | ~SpectrumList () |
Detailed Description
SpectrumList implementation that assigns (probable) charge states to tandem mass spectra.
Definition at line 37 of file SpectrumList_ChargeStateCalculator.hpp.
Constructor & Destructor Documentation
pwiz::analysis::SpectrumList_ChargeStateCalculator::SpectrumList_ChargeStateCalculator |
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const msdata::SpectrumListPtr & |
inner, |
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bool |
overrideExistingChargeState = true , |
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int |
maxMultipleCharge = 3 , |
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int |
minMultipleCharge = 2 , |
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double |
intensityFractionBelowPrecursorForSinglyCharged = 0.9 , |
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bool |
makeMS2 = false |
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Member Function Documentation
virtual msdata::SpectrumPtr pwiz::analysis::SpectrumList_ChargeStateCalculator::spectrum |
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size_t |
index, |
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bool |
getBinaryData = true |
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| const |
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virtual |
Member Data Documentation
bool pwiz::analysis::SpectrumList_ChargeStateCalculator::override_ |
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int pwiz::analysis::SpectrumList_ChargeStateCalculator::maxCharge_ |
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int pwiz::analysis::SpectrumList_ChargeStateCalculator::minCharge_ |
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double pwiz::analysis::SpectrumList_ChargeStateCalculator::fraction_ |
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bool pwiz::analysis::SpectrumList_ChargeStateCalculator::makeMS2_ |
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The documentation for this class was generated from the following file: