Uses of Class
com.compomics.util.experiment.biology.ions.impl.ReporterIon
Package | Description |
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com.compomics.util.experiment.biology.ions.impl |
Ion implementations.
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com.compomics.util.experiment.biology.modifications | |
com.compomics.util.experiment.identification.spectrum_annotation.simple_annotators |
This package contains implementations of the SimpleAnnotator allowing the annotation of specific sets of ions.
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com.compomics.util.experiment.identification.spectrum_annotation.spectrum_annotators |
This package contains implementations of the SpectrumAnnotator allowing the annotation of all ions.
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com.compomics.util.experiment.quantification.reporterion |
Experiment classes related to reporter ions.
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Uses of ReporterIon in com.compomics.util.experiment.biology.ions.impl
Fields in com.compomics.util.experiment.biology.ions.impl declared as ReporterIon Modifier and Type Field Description static ReporterIon
ReporterIon. ACE_K_126
Standard reporter ion for lysine acetylation (PMID: 18338905).static ReporterIon
ReporterIon. ACE_K_143
Standard reporter ion for lysine acetylation (PMID: 18338905).static ReporterIon
ReporterIon. DI_METHYL_R_112
Standard reporter ion for di-methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. DI_METHYL_R_115
Standard reporter ion for di-methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. DI_METHYL_R_157
Standard reporter ion for di-methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. FORMYL_K
Standard reporter ion for formylation of K (PMID: 24895383).static ReporterIon
ReporterIon. iodoTMT_126
Standard reporter ion iodoTMT 126.static ReporterIon
ReporterIon. iodoTMT_126_ETD
Standard reporter ion iodoTMT 126 with ETD fragmentation.static ReporterIon
ReporterIon. iodoTMT_127
Standard reporter ion iodoTMT 127.static ReporterIon
ReporterIon. iodoTMT_127_ETD
Standard reporter ion iodoTMT 127 with ETD fragmentation.static ReporterIon
ReporterIon. iodoTMT_128
Standard reporter ion iodoTMT 128.static ReporterIon
ReporterIon. iodoTMT_128_ETD
Standard reporter ion iodoTMT 128 with ETD fragmentation.static ReporterIon
ReporterIon. iodoTMT_129
Standard reporter ion iodoTMT 128.static ReporterIon
ReporterIon. iodoTMT_129_ETD
Standard reporter ion iodoTMT 128 with ETD fragmentation.static ReporterIon
ReporterIon. iodoTMT_130
Standard reporter ion iodoTMT 130.static ReporterIon
ReporterIon. iodoTMT_130_ETD
Standard reporter ion iodoTMT 130 with ETD fragmentation.static ReporterIon
ReporterIon. iodoTMT_131
Standard reporter ion iodoTMT 131.static ReporterIon
ReporterIon. iodoTMT_131_ETD
Standard reporter ion iodoTMT 131 with ETD fragmentation.static ReporterIon
ReporterIon. iodoTMT_zero
Standard reporter ion iodoTMT zero.static ReporterIon
ReporterIon. iodoTMT_zero_ETD
Standard reporter ion iodoTMT zero with ETD fragmentation.static ReporterIon
ReporterIon. iTRAQ_145
Standard reporter ion iTRAQ (reporter + balancer).static ReporterIon
ReporterIon. iTRAQ_305
Standard reporter ion iTRAQ (reporter + balancer).static ReporterIon
ReporterIon. iTRAQ4Plex_114
Standard reporter ion iTRAQ 4Plex 114.static ReporterIon
ReporterIon. iTRAQ4Plex_115
Standard reporter ion iTRAQ 4Plex 115.static ReporterIon
ReporterIon. iTRAQ4Plex_116
Standard reporter ion iTRAQ 4Plex 116.static ReporterIon
ReporterIon. iTRAQ4Plex_117
Standard reporter ion iTRAQ 4Plex 117.static ReporterIon
ReporterIon. iTRAQ8Plex_113
Standard reporter ion iTRAQ 8Plex 113.static ReporterIon
ReporterIon. iTRAQ8Plex_114
Standard reporter ion iTRAQ 8Plex 114.static ReporterIon
ReporterIon. iTRAQ8Plex_115
Standard reporter ion iTRAQ 8Plex 115.static ReporterIon
ReporterIon. iTRAQ8Plex_116
Standard reporter ion iTRAQ 8Plex 116.static ReporterIon
ReporterIon. iTRAQ8Plex_117
Standard reporter ion iTRAQ 8Plex 117.static ReporterIon
ReporterIon. iTRAQ8Plex_118
Standard reporter ion iTRAQ 8Plex 118.static ReporterIon
ReporterIon. iTRAQ8Plex_119
Standard reporter ion iTRAQ 8Plex 119.static ReporterIon
ReporterIon. iTRAQ8Plex_121
Standard reporter ion iTRAQ 8Plex 121.static ReporterIon
ReporterIon. METHYL_R_112
Standard reporter ion for methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. METHYL_R_115
Standard reporter ion for methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. METHYL_R_143
Standard reporter ion for methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. METHYL_R_70
Standard reporter ion for methylation of R (PMID: 16335983).static ReporterIon
ReporterIon. METHYL_R_87
Standard reporter ion for methylation of R.static ReporterIon
ReporterIon. PHOSPHO_Y
Standard reporter ion for phosphorylation of tyrosine (PMID: 11473401).static ReporterIon
ReporterIon. QQ
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQ_H2O
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQT
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQT_H2O
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQTG
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQTG_H2O
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQTGG
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. QQTGG_H2O
Standard reporter ion for SUMO-2/3 Q87R.static ReporterIon
ReporterIon. TMT_126
Standard reporter ion TMT 126.static ReporterIon
ReporterIon. TMT_126_ETD
Standard reporter ion TMT 126 with ETD fragmentation.static ReporterIon
ReporterIon. TMT_127C
Standard reporter ion TMT 127C.static ReporterIon
ReporterIon. TMT_127C_ETD
Standard reporter ion TMT 127C with ETD fragmentation.static ReporterIon
ReporterIon. TMT_127N
Standard reporter ion TMT 127N.static ReporterIon
ReporterIon. TMT_127N_ETD
Standard reporter ion TMT 127N with ETD fragmentation.static ReporterIon
ReporterIon. TMT_128C
Standard reporter ion TMT 128C.static ReporterIon
ReporterIon. TMT_128C_ETD
Standard reporter ion TMT 128C with ETD fragmentation.static ReporterIon
ReporterIon. TMT_128N
Standard reporter ion TMT 128N.static ReporterIon
ReporterIon. TMT_128N_ETD
Standard reporter ion TMT 128N with ETD fragmentation.static ReporterIon
ReporterIon. TMT_129C
Standard reporter ion TMT 129C.static ReporterIon
ReporterIon. TMT_129C_ETD
Standard reporter ion TMT 129C with ETD fragmentation.static ReporterIon
ReporterIon. TMT_129N
Standard reporter ion TMT 129N.static ReporterIon
ReporterIon. TMT_129N_ETD
Standard reporter ion TMT 129N with ETD fragmentation.static ReporterIon
ReporterIon. TMT_130C
Standard reporter ion TMT 130C.static ReporterIon
ReporterIon. TMT_130C_ETD
Standard reporter ion TMT 130C with ETD fragmentation.static ReporterIon
ReporterIon. TMT_130N
Standard reporter ion TMT 130N.static ReporterIon
ReporterIon. TMT_130N_ETD
Standard reporter ion TMT 130N with ETD fragmentation.static ReporterIon
ReporterIon. TMT_131
Standard reporter ion TMT 131.static ReporterIon
ReporterIon. TMT_131_ETD
Standard reporter ion TMT 131 with ETD fragmentation.static ReporterIon
ReporterIon. TMT_131C
Standard reporter ion TMT 131C.static ReporterIon
ReporterIon. TMT_131C_ETD
Standard reporter ion TMT 131C with ETD fragmentation.static ReporterIon
ReporterIon. TMT_226
Standard reporter ion TMT (reporter + balancer).static ReporterIon
ReporterIon. TMT_230
Standard reporter ion TMT (reporter + balancer).static ReporterIon
ReporterIon. TMTpro_126
Standard reporter ion TMTpro-126.static ReporterIon
ReporterIon. TMTpro_127C
Standard reporter ion TMTpro-127C.static ReporterIon
ReporterIon. TMTpro_127N
Standard reporter ion TMTpro-127N.static ReporterIon
ReporterIon. TMTpro_128C
Standard reporter ion TMTpro-128C.static ReporterIon
ReporterIon. TMTpro_128N
Standard reporter ion TMTpro-128N.static ReporterIon
ReporterIon. TMTpro_129C
Standard reporter ion TMTpro-129C.static ReporterIon
ReporterIon. TMTpro_129N
Standard reporter ion TMTpro-129N.static ReporterIon
ReporterIon. TMTpro_130C
Standard reporter ion TMTpro-130C.static ReporterIon
ReporterIon. TMTpro_130N
Standard reporter ion TMTpro-130N.static ReporterIon
ReporterIon. TMTpro_131C
Standard reporter ion TMTpro-131C.static ReporterIon
ReporterIon. TMTpro_131N
Standard reporter ion TMTpro-131N.static ReporterIon
ReporterIon. TMTpro_132C
Standard reporter ion TMTpro-132C.static ReporterIon
ReporterIon. TMTpro_132N
Standard reporter ion TMTpro-132N.static ReporterIon
ReporterIon. TMTpro_133C
Standard reporter ion TMTpro-133C.static ReporterIon
ReporterIon. TMTpro_133N
Standard reporter ion TMTpro-133N.static ReporterIon
ReporterIon. TMTpro_134N
Standard reporter ion TMTpro-134N.Methods in com.compomics.util.experiment.biology.ions.impl that return ReporterIon Modifier and Type Method Description ReporterIon
ReporterIon. clone()
static ReporterIon
ReporterIon. getReporterIon(int subType)
Returns the reporter ion indexed by the given index.static ReporterIon
ReporterIon. getReporterIon(String name)
Returns the reporter ion corresponding to the given name.Methods in com.compomics.util.experiment.biology.ions.impl with parameters of type ReporterIon Modifier and Type Method Description static void
ReporterIon. addReporterIon(ReporterIon reporterIon)
Adds a reporter ion to the class static map.boolean
ReporterIon. isSameAs(ReporterIon anotherReporterIon)
Compares the current reporter ion with another one based on their masses. -
Uses of ReporterIon in com.compomics.util.experiment.biology.modifications
Methods in com.compomics.util.experiment.biology.modifications that return types with arguments of type ReporterIon Modifier and Type Method Description ArrayList<ReporterIon>
Modification. getReporterIons()
Returns the reporter ions possibly encountered with this modification.Methods in com.compomics.util.experiment.biology.modifications with parameters of type ReporterIon Modifier and Type Method Description void
Modification. addReporterIon(ReporterIon reporterIon)
Adds a reporter ion.Method parameters in com.compomics.util.experiment.biology.modifications with type arguments of type ReporterIon Modifier and Type Method Description void
Modification. setReporterIons(ArrayList<ReporterIon> reporterIons)
Sets the reporter ions possibly encountered with this modification. -
Uses of ReporterIon in com.compomics.util.experiment.identification.spectrum_annotation.simple_annotators
Constructors in com.compomics.util.experiment.identification.spectrum_annotation.simple_annotators with parameters of type ReporterIon Constructor Description ReporterIonAnnotator(ReporterIon[] reporterIons)
Constructor. -
Uses of ReporterIon in com.compomics.util.experiment.identification.spectrum_annotation.spectrum_annotators
Constructors in com.compomics.util.experiment.identification.spectrum_annotation.spectrum_annotators with parameters of type ReporterIon Constructor Description SimplePeptideAnnotator(Peptide peptide, String[] fixedModifications, int charge, boolean a, boolean b, boolean c, boolean x, boolean y, boolean z, boolean precursor, boolean immonium, boolean related, boolean reporter, boolean neutralLosses, boolean neutralLossesSequenceDependent, ReporterIon[] reporterIons)
Constructor. -
Uses of ReporterIon in com.compomics.util.experiment.quantification.reporterion
Methods in com.compomics.util.experiment.quantification.reporterion that return ReporterIon Modifier and Type Method Description ReporterIon
Reagent. getReporterIon()
Returns the reporter ion to look for in the spectrum.ReporterIon
ReporterMethod. getReporterIon(String reporterIonName)
Returns the reporter ion of the given name, null if not found.Methods in com.compomics.util.experiment.quantification.reporterion with parameters of type ReporterIon Modifier and Type Method Description void
Reagent. setReporterIon(ReporterIon reporterIon)
Sets the reporter ion to look for in the spectrum.