Uses of Class
es.imim.DisGeNET.gui.GuiParameters

Packages that use GuiParameters

Package	Description
es.imim.DisGeNET.database
es.imim.DisGeNET.gui
es.imim.DisGeNET.internal.automation
es.imim.DisGeNET.internal.tables
es.imim.DisGeNET.network

Uses of GuiParameters in es.imim.DisGeNET.database

Methods in es.imim.DisGeNET.database with parameters of type GuiParameters

Modifier and Type	Method and Description
ArrayList<String>	Database.getAssociatedDiseases(String geneId, String src, GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getAssociatedDiseases(String geneId, String src, GuiParameters params)
ArrayList<String>	Database.getAssociatedDiseases(String geneId, String src, String assocType, GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getAssociatedDiseases(String geneId, String src, String assocType, GuiParameters params)
ArrayList<String>	Database.getAssociatedGeneNames(String diseaseId, String source, String associationType, GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getAssociatedGeneNames(String diseaseId, String src, String assocType, GuiParameters params)
HashMap<String,HashMap<String,String>>	Database.getDiseaseAttributes(GuiParameters curParams)
HashMap<String,HashMap<String,String>>	DatabaseImpl.getDiseaseAttributes(GuiParameters params)
HashMap<String,String>	Database.getDiseaseClassForAllDiseases(GuiParameters curParams)
HashMap<String,String>	DatabaseImpl.getDiseaseClassForAllDiseases(GuiParameters params)
HashMap<String,String>	Database.getDiseaseClassForAllGenes(String source, GuiParameters curParams)
HashMap<String,String>	DatabaseImpl.getDiseaseClassForAllGenes(String source, GuiParameters params)
String	Database.getDiseaseClassId(String diseaseClassName, GuiParameters curParams)
String	DatabaseImpl.getDiseaseClassId(String diseaseClassName, GuiParameters params)
String	Database.getDiseaseIdWildCardGDA(String diseaseName, GuiParameters curParams)
String	DatabaseImpl.getDiseaseIdWildCardGDA(String diseaseName, GuiParameters params)
String	DatabaseImpl.getDiseaseIdWildCardVDA(String diseaseName, GuiParameters params)
ArrayList<String>	Database.getDiseaseList(GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getDiseaseList(GuiParameters curParams)
ArrayList<String>	Database.getDiseaseListVariant(GuiParameters params)
ArrayList<String>	DatabaseImpl.getDiseaseListVariant(GuiParameters curParams)
HashMap<String,ArrayList<String>>	Database.getDiseaseProjectionBySrc(GuiParameters curParams)
HashMap<String,ArrayList<String>>	DatabaseImpl.getDiseaseProjectionBySrc(GuiParameters curParams)
Map<String,List<String>>	Database.getDiseasesAssociatedToGenes(GuiParameters params)
Map<String,List<String>>	DatabaseImpl.getDiseasesAssociatedToGenes(GuiParameters params)
HashMap<String,String>	Database.getEdgeAttributes(String assocId, GuiParameters curParams)
HashMap<String,String>	DatabaseImpl.getEdgeAttributes(String assocId, GuiParameters params)
HashMap<String,HashMap<String,String>>	Database.getGeneAttributes(GuiParameters curParams)
HashMap<String,HashMap<String,String>>	DatabaseImpl.getGeneAttributes(GuiParameters curParams)
ArrayList<String>	Database.getGeneDiseaseList(GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getGeneDiseaseList(GuiParameters curParams)
HashMap<String,ArrayList<String>>	Database.getGeneDiseaseNetworkBySrc(GuiParameters curParams)
HashMap<String,ArrayList<String>>	DatabaseImpl.getGeneDiseaseNetworkBySrc(GuiParameters curParams)
ArrayList<String>	Database.getGeneIdList(GuiParameters params)
ArrayList<String>	DatabaseImpl.getGeneIdList(GuiParameters params)
String	Database.getGeneIdWildCardGda(String geneName, GuiParameters params)
String	DatabaseImpl.getGeneIdWildCardGda(String geneName, GuiParameters params)
String	DatabaseImpl.getGeneIdWildCardVda(String geneName, GuiParameters params)
ArrayList<String>	Database.getGeneList(GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getGeneList(GuiParameters curParams)
ArrayList<String>	Database.getGeneListVariant(GuiParameters params)
ArrayList<String>	DatabaseImpl.getGeneListVariant(GuiParameters curParams)
HashMap<String,ArrayList<String>>	Database.getGeneProjectionBySrc(GuiParameters curParams)
HashMap<String,ArrayList<String>>	DatabaseImpl.getGeneProjectionBySrc(GuiParameters curParams)
List<String>	DatabaseImpl.getVariantAssociatedDiseases(String variantId, String src, String assocType, GuiParameters params)
HashMap<String,HashMap<String,String>>	DatabaseImpl.getVariantAttributes(GuiParameters curParams)
HashMap<String,ArrayList<String>>	Database.getVariantDiseaseNetworkBySrc(GuiParameters curParams)
HashMap<String,ArrayList<String>>	DatabaseImpl.getVariantDiseaseNetworkBySrc(GuiParameters curParams)
String	DatabaseImpl.getVariantIdWildCard(String variantId, GuiParameters params)
ArrayList<String>	Database.getVariantList(GuiParameters curParams)
ArrayList<String>	DatabaseImpl.getVariantList(GuiParameters curParams)

Uses of GuiParameters in es.imim.DisGeNET.gui

Methods in es.imim.DisGeNET.gui that return GuiParameters

Modifier and Type	Method and Description
GuiParameters<Object,Object>	MainPanel.getParams()

Methods in es.imim.DisGeNET.gui with parameters of type GuiParameters

Modifier and Type	Method and Description
void	MainPanel.setParams(GuiParameters<Object,Object> params)

Uses of GuiParameters in es.imim.DisGeNET.internal.automation

Constructors in es.imim.DisGeNET.internal.automation with parameters of type GuiParameters

Constructor and Description
NetTaskAutomation(GuiParameters curParams)

Uses of GuiParameters in es.imim.DisGeNET.internal.tables

Methods in es.imim.DisGeNET.internal.tables that return GuiParameters

Modifier and Type	Method and Description
GuiParameters	DisGeNetCyTableDisease.getParams()
GuiParameters	DisGeNetCyTableVariant.getParams()
GuiParameters	DisGeNetCyTableGene.getParams()

Methods in es.imim.DisGeNET.internal.tables with parameters of type GuiParameters

Modifier and Type	Method and Description
void	DisGeNetCyTableDisease.setParams(GuiParameters params)
void	DisGeNetCyTableVariant.setParams(GuiParameters params)
void	DisGeNetCyTableGene.setParams(GuiParameters params)

Constructors in es.imim.DisGeNET.internal.tables with parameters of type GuiParameters

Constructor and Description
DisGeNetCyTableBase(GuiParameters params)
DisGeNetCyTableDisease(GuiParameters params)
DisGeNetCyTableGene(GuiParameters params)
DisGeNetCyTableVariant(GuiParameters params)

Uses of GuiParameters in es.imim.DisGeNET.network

Methods in es.imim.DisGeNET.network that return GuiParameters

Modifier and Type	Method and Description
GuiParameters	NetTask.getCurParams()

Methods in es.imim.DisGeNET.network with parameters of type GuiParameters

Modifier and Type	Method and Description
void	NetworkBuilder.buildDiseaseNet(GuiParameters curParams) Generic function to create disease network
void	NetworkBuilder.buildGeneDiseaseNet(GuiParameters curParams) Get the gene/disease net information from the database and call generic function to build net
void	NetworkBuilder.buildGeneNet(GuiParameters curParams) Generic function to create gene network
void	NetworkBuilder.buildNet(List<String> list1, List<String> list2, List<String> nrCommonEntities, String src, GuiParameters params) Builds a new disease-disease or gene-gene network.
void	NetworkBuilder.buildNetWithEdgeAttributes(ArrayList<String> intList, ArrayList<String> disList, ArrayList<String> genList, ArrayList<String> assocList, ArrayList<String> assocTypeList, ArrayList<String> srcList, ArrayList<String> sentenceList, ArrayList<String> pmidsList, ArrayList<String> scoreList, ArrayList<String> eiList, ArrayList<String> elList, ArrayList<String> yearList, GuiParameters params)
void	NetworkBuilder.buildVariantDiseaseNet(GuiParameters curParams) Get the variant/disease net information from the database and call generic function to build net
Map<String,Long>	NetworkBuilder.expandGeneDiseaseNet(GuiParameters curParams, Map<String,Long> nodeMap) Expands the selected gene disease network using the selected nodes as reference.
Map<String,Long>	NetworkBuilder.expandVariantDiseaseNet(GuiParameters curParams, Map<String,Long> nodeMap) Expands the selected variant disease network using the selected nodes as reference.
void	NetworkBuilder.initAdditionalStyleAttributes(GuiParameters<?,?> params) Fills the attribute columns for the different type of networks.
void	NetTask.setCurParams(GuiParameters curParams)

Constructors in es.imim.DisGeNET.network with parameters of type GuiParameters

Constructor and Description
NetAction(GuiParameters curParams)
NetAction(GuiParameters curParams, JTabbedPane pane)
NetTask(GuiParameters curParams)
NetworkBuilder(GuiParameters params)