The CrossLinkSpectrumMatch struct represents a PSM between a ProteinProteinCrossLink and a spectrum in OpenPepXL. More...
#include <OpenMS/ANALYSIS/XLMS/OPXLDataStructs.h>
Public Member Functions | |
bool | operator< (const CrossLinkSpectrumMatch &other) const |
bool | operator== (const CrossLinkSpectrumMatch &other) const |
Public Attributes | |
ProteinProteinCrossLink | cross_link |
structure of the cross-link More... | |
Size | scan_index_light |
reference to pair of spectra More... | |
Size | scan_index_heavy |
double | score |
final score More... | |
Size | rank |
rank among the matches to the same spectrum More... | |
double | pre_score |
counts, scores and other data for xQuest-like output More... | |
double | percTIC |
double | wTIC |
double | int_sum |
double | match_odds |
std::vector< double > | xcorrx |
double | xcorrx_max |
std::vector< double > | xcorrc |
double | xcorrc_max |
Size | matched_common_alpha |
Size | matched_common_beta |
Size | matched_xlink_alpha |
Size | matched_xlink_beta |
double | HyperCommon |
double | HyperXlink |
double | HyperAlpha |
double | HyperBeta |
double | HyperBoth |
double | PScoreCommon |
double | PScoreXlink |
double | PScoreAlpha |
double | PScoreBeta |
double | PScoreBoth |
std::vector< PeptideHit::PeakAnnotation > | frag_annotations |
Size | peptide_id_index |
The CrossLinkSpectrumMatch struct represents a PSM between a ProteinProteinCrossLink and a spectrum in OpenPepXL.
This struct contains a ProteinProteinCrossLink and indices to one or two spectra. It also contains the results of a match between the ProteinProteinCrossLink and these spectra as scores and peak annotations. Used as a temporary container to collect results efficiently, since only a few top matches will be kept for each experimental spectrum for output.
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References OPXLDataStructs::CrossLinkSpectrumMatch::score.
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References OPXLDataStructs::CrossLinkSpectrumMatch::cross_link, OPXLDataStructs::CrossLinkSpectrumMatch::HyperAlpha, OPXLDataStructs::CrossLinkSpectrumMatch::HyperBeta, OPXLDataStructs::CrossLinkSpectrumMatch::HyperBoth, OPXLDataStructs::CrossLinkSpectrumMatch::HyperCommon, OPXLDataStructs::CrossLinkSpectrumMatch::HyperXlink, OPXLDataStructs::CrossLinkSpectrumMatch::int_sum, OPXLDataStructs::CrossLinkSpectrumMatch::match_odds, OPXLDataStructs::CrossLinkSpectrumMatch::matched_common_alpha, OPXLDataStructs::CrossLinkSpectrumMatch::matched_common_beta, OPXLDataStructs::CrossLinkSpectrumMatch::matched_xlink_alpha, OPXLDataStructs::CrossLinkSpectrumMatch::matched_xlink_beta, OPXLDataStructs::CrossLinkSpectrumMatch::percTIC, OPXLDataStructs::CrossLinkSpectrumMatch::pre_score, OPXLDataStructs::CrossLinkSpectrumMatch::PScoreAlpha, OPXLDataStructs::CrossLinkSpectrumMatch::PScoreBeta, OPXLDataStructs::CrossLinkSpectrumMatch::PScoreBoth, OPXLDataStructs::CrossLinkSpectrumMatch::PScoreCommon, OPXLDataStructs::CrossLinkSpectrumMatch::PScoreXlink, OPXLDataStructs::CrossLinkSpectrumMatch::rank, OPXLDataStructs::CrossLinkSpectrumMatch::scan_index_heavy, OPXLDataStructs::CrossLinkSpectrumMatch::scan_index_light, OPXLDataStructs::CrossLinkSpectrumMatch::score, OPXLDataStructs::CrossLinkSpectrumMatch::wTIC, OPXLDataStructs::CrossLinkSpectrumMatch::xcorrc, OPXLDataStructs::CrossLinkSpectrumMatch::xcorrc_max, OPXLDataStructs::CrossLinkSpectrumMatch::xcorrx, and OPXLDataStructs::CrossLinkSpectrumMatch::xcorrx_max.
ProteinProteinCrossLink cross_link |
structure of the cross-link
Referenced by TOPPOpenPepXLLF::main_(), TOPPOpenPepXL::main_(), and OPXLDataStructs::CrossLinkSpectrumMatch::operator==().
std::vector<PeptideHit::PeakAnnotation> frag_annotations |
Referenced by TOPPOpenPepXLLF::main_(), and TOPPOpenPepXL::main_().
double HyperAlpha |
double HyperBeta |
double HyperBoth |
double HyperCommon |
double HyperXlink |
double int_sum |
double match_odds |
Size matched_common_alpha |
Size matched_common_beta |
Size matched_xlink_alpha |
Size matched_xlink_beta |
Size peptide_id_index |
double percTIC |
double pre_score |
counts, scores and other data for xQuest-like output
Referenced by TOPPOpenPepXLLF::main_(), TOPPOpenPepXL::main_(), and OPXLDataStructs::CrossLinkSpectrumMatch::operator==().
double PScoreAlpha |
double PScoreBeta |
double PScoreBoth |
double PScoreCommon |
double PScoreXlink |
Size rank |
rank among the matches to the same spectrum
Referenced by OPXLDataStructs::CrossLinkSpectrumMatch::operator==().
Size scan_index_heavy |
Size scan_index_light |
reference to pair of spectra
Referenced by TOPPOpenPepXLLF::main_(), TOPPOpenPepXL::main_(), and OPXLDataStructs::CrossLinkSpectrumMatch::operator==().
double score |
double wTIC |
std::vector< double > xcorrc |
Referenced by OPXLDataStructs::CrossLinkSpectrumMatch::operator==().
double xcorrc_max |
std::vector< double > xcorrx |
Referenced by OPXLDataStructs::CrossLinkSpectrumMatch::operator==().
double xcorrx_max |
OpenMS / TOPP release 2.3.0 | Documentation generated on Tue Jan 9 2018 18:22:11 using doxygen 1.8.13 |