Uses of Class
com.compomics.util.experiment.identification.spectrum_assumptions.TagAssumption
Package | Description |
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com.compomics.util.experiment.identification.matches |
Experiment classes related to matches.
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com.compomics.util.experiment.identification.spectrum_assumptions |
Implementations of the SpectrumIdentificationAssumption.
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Uses of TagAssumption in com.compomics.util.experiment.identification.matches
Methods in com.compomics.util.experiment.identification.matches that return TagAssumption Modifier and Type Method Description TagAssumption
SpectrumMatch. getBestTagAssumption()
Getter for the best tag assumption.Methods in com.compomics.util.experiment.identification.matches that return types with arguments of type TagAssumption Modifier and Type Method Description java.util.stream.Stream<TagAssumption>
SpectrumMatch. getAllTagAssumptions()
Returns a stream of all tag assumptionsTreeMap<Double,ArrayList<TagAssumption>>
SpectrumMatch. getAllTagAssumptions(int advocateId)
Returns all tag assumptions for the specified search engine indexed by their score.HashMap<Integer,TreeMap<Double,ArrayList<TagAssumption>>>
SpectrumMatch. getTagAssumptionsMap()
Returns the tag assumptions map: advocate id > score > list of assumptions.Methods in com.compomics.util.experiment.identification.matches with parameters of type TagAssumption Modifier and Type Method Description void
SpectrumMatch. addTagAssumption(int advocateId, TagAssumption tagAssumption)
Add a hit.void
SpectrumMatch. removeTagAssumption(TagAssumption tagAssumption)
Removes an assumption from the mapping.void
SpectrumMatch. setBestTagAssumption(TagAssumption bestTagAssumption)
Setter for the best tag assumption.Method parameters in com.compomics.util.experiment.identification.matches with type arguments of type TagAssumption Modifier and Type Method Description void
SpectrumMatch. setTagAssumptionMap(HashMap<Integer,TreeMap<Double,ArrayList<TagAssumption>>> tagAssumptionsMap)
Sets the tag assumption map. -
Uses of TagAssumption in com.compomics.util.experiment.identification.spectrum_assumptions
Methods in com.compomics.util.experiment.identification.spectrum_assumptions that return TagAssumption Modifier and Type Method Description TagAssumption
TagAssumption. reverse(boolean yIon)
Returns a new TagAssumption instance where the tag is a reversed version of this tag.Methods in com.compomics.util.experiment.identification.spectrum_assumptions that return types with arguments of type TagAssumption Modifier and Type Method Description ArrayList<TagAssumption>
TagAssumption. getPossibleTags(boolean forwardIon, int minCharge, int maxCharge, int maxIsotope)
Computes the possible tag assumptions which can be obtained from this one by accounting for other charges and isotopes.