Uses of Interface
uk.ac.ebi.pridemod.model.PTM

Packages that use PTM

Package	Description
uk.ac.ebi.pridemod
uk.ac.ebi.pridemod.controller
uk.ac.ebi.pridemod.controller.impl
uk.ac.ebi.pridemod.model

Uses of PTM in uk.ac.ebi.pridemod

Methods in uk.ac.ebi.pridemod that return PTM

Modifier and Type	Method and Description
PTM	ModReader.getPTMbyAccession(String accession) PTM accession

Methods in uk.ac.ebi.pridemod that return types with arguments of type PTM

Modifier and Type	Method and Description
List<PTM>	ModReader.getPTMListByAvgDeltaMass(Double delta)
List<PTM>	ModReader.getPTMListByEqualName(String name) Return all PTMs with the same name.
List<PTM>	ModReader.getPTMListByMonoDeltaMass(Double delta)
List<PTM>	ModReader.getPTMListByPatternDescription(String descriptionPattern) Description pattern to found PTMs with the pattern
List<PTM>	ModReader.getPTMListByPatternName(String namePattern) String pattern present in the name.
List<PTM>	ModReader.getPTMListBySpecificity(Specificity specificity) Specificity to filter all the identifications in the

Uses of PTM in uk.ac.ebi.pridemod.controller

Fields in uk.ac.ebi.pridemod.controller with type parameters of type PTM

Modifier and Type	Field and Description
Map<Comparable,PTM>	AbstractDataAccessController.ptmMap

Methods in uk.ac.ebi.pridemod.controller that return PTM

Modifier and Type	Method and Description
PTM	DataAccessController.getPTMbyAccession(String accession) PTM accession
PTM	AbstractDataAccessController.getPTMbyAccession(String accession) Return the PTM with an specific accession.

Methods in uk.ac.ebi.pridemod.controller that return types with arguments of type PTM

Modifier and Type	Method and Description
List<PTM>	DataAccessController.getPTMListByAvgDeltaMass(Double delta) Get List PTMs by Average Delta Mass
List<PTM>	AbstractDataAccessController.getPTMListByAvgDeltaMass(Double delta)
List<PTM>	DataAccessController.getPTMListByEqualName(String name) Return all PTMs with the same name.
List<PTM>	AbstractDataAccessController.getPTMListByEqualName(String name)
List<PTM>	DataAccessController.getPTMListByMonoDeltaMass(Double delta) Get List of PTMs by Monoisotopic delta mass
List<PTM>	AbstractDataAccessController.getPTMListByMonoDeltaMass(Double delta)
List<PTM>	DataAccessController.getPTMListByPatternDescription(String descriptionPattern) Description pattern to found PTMs with the pattern
List<PTM>	AbstractDataAccessController.getPTMListByPatternDescription(String descriptionPattern)
List<PTM>	DataAccessController.getPTMListByPatternName(String namePattern) String pattern present in the name.
List<PTM>	AbstractDataAccessController.getPTMListByPatternName(String namePattern) Return the ptm with an specific pattern in the name
List<PTM>	DataAccessController.getPTMListBySpecificity(Specificity specificity) Specificity to filter all the identifications in the
List<PTM>	AbstractDataAccessController.getPTMListBySpecificity(Specificity specificity)

Uses of PTM in uk.ac.ebi.pridemod.controller.impl

Methods in uk.ac.ebi.pridemod.controller.impl that return PTM

Modifier and Type	Method and Description
PTM	UnimodDataAccessController.getPTMbyAccession(String accession) We decided to put the UNIOMD: prefix in order to be compatible with the same PSI-MOD style and the mzIdentML.

Uses of PTM in uk.ac.ebi.pridemod.model

Classes in uk.ac.ebi.pridemod.model that implement PTM

Modifier and Type	Class and Description
class	AbstractPTM yperez
class	PRIDEModPTM yperez
class	PSIModPTM yperez.
class	UniModPTM yperez