uk.ac.ebi.pridemod.controller

Interface DataAccessController

All Known Implementing Classes:

AbstractDataAccessController, PRIDEModDataAccessController, PSIModDataAccessController, UnimodDataAccessController

public interface DataAccessController

DataAccessController is an Interface for all the Modification Databases. yperez.

Method Summary

Methods

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

Method Detail

getSource

InputStream getSource()

getPTMbyAccession

PTM getPTMbyAccession(String accession)

PTM accession

Parameters:

accession -

Returns:

getPTMListByPatternName

List<PTM> getPTMListByPatternName(String namePattern)

String pattern present in the name.

Parameters:

namePattern -

Returns:

getPTMListBySpecificity

List<PTM> getPTMListBySpecificity(Specificity specificity)

Specificity to filter all the identifications in the

Parameters:

specificity -

Returns:

getPTMListByPatternDescription

List<PTM> getPTMListByPatternDescription(String descriptionPattern)

Description pattern to found PTMs with the pattern

Parameters:

descriptionPattern -

Returns:

getPTMListByEqualName

List<PTM> getPTMListByEqualName(String name)

Return all PTMs with the same name. In case of PSI-Mod modifications different mofifications can have the same name.

Parameters:

name -

Returns:

getPTMListByMonoDeltaMass

List<PTM> getPTMListByMonoDeltaMass(Double delta)

Get List of PTMs by Monoisotopic delta mass

Parameters:

delta -

Returns:

getPTMListByAvgDeltaMass

List<PTM> getPTMListByAvgDeltaMass(Double delta)

Get List PTMs by Average Delta Mass

Parameters:

delta -

Returns: