public class PrideUtilities extends Object
Modifier and Type | Method and Description |
---|---|
static List<uk.ac.ebi.jmzidml.model.mzidml.CvParam> |
convertCvParams(List<uk.ac.ebi.pride.utilities.data.core.CvParam> prideParams)
Converts a PRIDE-CvParam into a jMzIdentML CvParam
|
static uk.ac.ebi.pride.utilities.data.core.ProteinGroup |
convertInferenceProteinGroup(InferenceProteinGroup piaGroup,
boolean includingSubGroups,
boolean completePrideProteins)
Converts a
InferenceProteinGroup from any protein inference into
a PRIDE ProteinGroup . |
static uk.ac.ebi.pride.utilities.data.core.Protein |
convertIntermediateProtein(PrideIntermediateProtein intermediateProtein,
boolean completePrideProtein)
Converts a
PrideIntermediateProtein into a PRIDE Protein |
static List<uk.ac.ebi.jmzidml.model.mzidml.UserParam> |
convertUserParams(List<uk.ac.ebi.pride.utilities.data.core.UserParam> prideParams)
Converts a PRIDE-UserParam into a jMzIdentML-UserParam
|
public static List<uk.ac.ebi.jmzidml.model.mzidml.CvParam> convertCvParams(List<uk.ac.ebi.pride.utilities.data.core.CvParam> prideParams)
prideParams
- public static List<uk.ac.ebi.jmzidml.model.mzidml.UserParam> convertUserParams(List<uk.ac.ebi.pride.utilities.data.core.UserParam> prideParams)
prideParams
- public static uk.ac.ebi.pride.utilities.data.core.ProteinGroup convertInferenceProteinGroup(InferenceProteinGroup piaGroup, boolean includingSubGroups, boolean completePrideProteins)
InferenceProteinGroup
from any protein inference into
a PRIDE ProteinGroup
.piaGroup
- the inferred protein groupincludingSubGroups
- whether to add all sub-group entries to the Protein
s of the PRIDE ProteinGroup
completePrideProteins
- whether to add complete PRIDE proteins (exactly as when no filters were used) or create a new Protein
with the inference informationpublic static uk.ac.ebi.pride.utilities.data.core.Protein convertIntermediateProtein(PrideIntermediateProtein intermediateProtein, boolean completePrideProtein)
PrideIntermediateProtein
into a PRIDE Protein
intermediateProtein
- the interemdiate proteincompletePrideProtein
- whether to return the complete PRIDE protein or create a new Protein
with the inference informationCopyright © 2015. All Rights Reserved.