An R Package for retrieving data from DAVID into R objects using Web Services API.


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Documentation for package ‘RDAVIDWebService’ version 1.0.0

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A B C D E F G I L M P S T U

DAVIDWebService-package An R Package for retrieving data from DAVID into R objects using Web Services

-- A --

addList Methods to manipulate DAVID website
addList-method Methods to manipulate DAVID website
annotationSummary1 DAVID's website annotation summary example files
annotationSummary2 DAVID's website annotation summary example files
annotationTable1 DAVID's website functional annotation table example files
annotationTable2 DAVID's website functional annotation table example files
as High level constructors for DAVIDWebService package's classes.

-- B --

benjaminis Methods for 'DAVIDGODag' class object
benjaminis-method Methods for 'DAVIDGODag' class object
bonferronis Methods for 'DAVIDGODag' class object
bonferronis-method Methods for 'DAVIDGODag' class object

-- C --

categories 'categories' for the different DAVIDWebService package class objects
categories-method 'categories' for the different DAVIDWebService package class objects
cluster Methods for 'DAVIDCluster' class object
cluster-method Methods for 'DAVIDCluster' class object
cluster-methods Methods for 'DAVIDCluster' class object
connect Methods to manipulate DAVID website
connect-method Methods to manipulate DAVID website
counts Methods for 'DAVIDGODag' class object
counts-method Methods for 'DAVIDGODag' class object

-- D --

DAVIDCluster-class class "DAVIDCluster
DAVIDFunctionalAnnotationChart High level constructors for DAVIDWebService package's classes.
DAVIDFunctionalAnnotationChart-class class "DAVIDFunctionalAnnotationChart
DAVIDFunctionalAnnotationChart-method High level constructors for DAVIDWebService package's classes.
DAVIDFunctionalAnnotationChart-methods High level constructors for DAVIDWebService package's classes.
DAVIDFunctionalAnnotationTable High level constructors for DAVIDWebService package's classes.
DAVIDFunctionalAnnotationTable-class class "DAVIDFunctionalAnnotationTable
DAVIDFunctionalAnnotationTable-method High level constructors for DAVIDWebService package's classes.
DAVIDFunctionalAnnotationTable-methods High level constructors for DAVIDWebService package's classes.
DAVIDGeneCluster High level constructors for DAVIDWebService package's classes.
DAVIDGeneCluster-class class "DAVIDGeneCluster
DAVIDGeneCluster-method High level constructors for DAVIDWebService package's classes.
DAVIDGeneCluster-methods High level constructors for DAVIDWebService package's classes.
DAVIDGenes High level constructors for DAVIDWebService package's classes.
DAVIDGenes-class class "DAVIDGenes
DAVIDGenes-method High level constructors for DAVIDWebService package's classes.
DAVIDGenes-methods High level constructors for DAVIDWebService package's classes.
DAVIDGODag High level constructors for DAVIDWebService package's classes.
DAVIDGODag-class class "DAVIDGODag
DAVIDGODag-method High level constructors for DAVIDWebService package's classes.
DAVIDGODag-methods High level constructors for DAVIDWebService package's classes.
DAVIDResult-class class "DAVIDResult
DAVIDTermCluster High level constructors for DAVIDWebService package's classes.
DAVIDTermCluster-class class "DAVIDTermCluster
DAVIDTermCluster-method High level constructors for DAVIDWebService package's classes.
DAVIDTermCluster-methods High level constructors for DAVIDWebService package's classes.
DAVIDWebService Main class to connect to DAVID Web Service
DAVIDWebService-class Main class to connect to DAVID Web Service
demoList1 DAVID's website demoList1 example id files
demoList2 DAVID's website demoList1 example id files
dictionary Methods for 'DAVIDFunctionalAnnotationTable' class object
dictionary-method Methods for 'DAVIDFunctionalAnnotationTable' class object
dictionary-methods Methods for 'DAVIDFunctionalAnnotationTable' class object
duplicateIds Methods for 'DAVIDGenes' class object
duplicateIds-method Methods for 'DAVIDGenes' class object
duplicateIds-methods Methods for 'DAVIDGenes' class object

-- E --

enrichment Methods for 'DAVIDCluster' class object
enrichment-method Methods for 'DAVIDCluster' class object

-- F --

fdrs Methods for 'DAVIDGODag' class object
fdrs-method Methods for 'DAVIDGODag' class object
foldEnrichments Methods for 'DAVIDGODag' class object
foldEnrichments-method Methods for 'DAVIDGODag' class object
funChart1 DAVID's website Functional Annotation Chart example files
funChart2 DAVID's website Functional Annotation Chart example files

-- G --

geneCluster1 DAVID's website gene/term cluster report example files
geneCluster2 DAVID's website gene/term cluster report example files
geneList1 DAVID's website gene list example files
geneList2 DAVID's website gene list example files
genes 'genes' for the different DAVIDWebService package class objects.
genes-method 'genes' for the different DAVIDWebService package class objects.
genes-methods 'genes' for the different DAVIDWebService package class objects.
getAllAnnotationCategoryNames Methods to manipulate DAVID website
getAllAnnotationCategoryNames-method Methods to manipulate DAVID website
getAnnotationSummary Obtain DAVID website reports
getAnnotationSummary-method Obtain DAVID website reports
getBackgroundListNames Methods to manipulate DAVID website
getBackgroundListNames-method Methods to manipulate DAVID website
getClusterReport Obtain DAVID website reports
getClusterReport-method Obtain DAVID website reports
getClusterReportFile Obtain DAVID website reports
getClusterReportFile-method Obtain DAVID website reports
getCurrentBackgroundListPosition Methods to manipulate DAVID website
getCurrentBackgroundListPosition-method Methods to manipulate DAVID website
getCurrentGeneListPosition Methods to manipulate DAVID website
getCurrentGeneListPosition-method Methods to manipulate DAVID website
getCurrentSpeciesPosition Methods to manipulate DAVID website
getCurrentSpeciesPosition-method Methods to manipulate DAVID website
getDefaultCategoryNames Methods to manipulate DAVID website
getDefaultCategoryNames-method Methods to manipulate DAVID website
getEmail Accessor methods for 'DAVIDWebService' class
getEmail-method Accessor methods for 'DAVIDWebService' class
getFunctionalAnnotationChart Obtain DAVID website reports
getFunctionalAnnotationChart-method Obtain DAVID website reports
getFunctionalAnnotationChartFile Obtain DAVID website reports
getFunctionalAnnotationChartFile-method Obtain DAVID website reports
getFunctionalAnnotationTable Obtain DAVID website reports
getFunctionalAnnotationTable-method Obtain DAVID website reports
getFunctionalAnnotationTableFile Obtain DAVID website reports
getFunctionalAnnotationTableFile-method Obtain DAVID website reports
getGeneCategoriesReport Obtain DAVID website reports
getGeneCategoriesReport-method Obtain DAVID website reports
getGeneListNames Methods to manipulate DAVID website
getGeneListNames-method Methods to manipulate DAVID website
getGeneListReport Obtain DAVID website reports
getGeneListReport-method Obtain DAVID website reports
getGeneListReportFile Obtain DAVID website reports
getGeneListReportFile-method Obtain DAVID website reports
getIdTypes Methods to manipulate DAVID website
getIdTypes-method Methods to manipulate DAVID website
getListName Methods to manipulate DAVID website
getListName-method Methods to manipulate DAVID website
getSpecieNames Methods to manipulate DAVID website
getSpecieNames-method Methods to manipulate DAVID website
getStub Accessor methods for 'DAVIDWebService' class
getStub-method Accessor methods for 'DAVIDWebService' class

-- I --

ids 'ids' for the different DAVIDWebService package class objects
ids-method 'ids' for the different DAVIDWebService package class objects
initialize High level constructors for DAVIDWebService package's classes.
initialize-method High level constructors for DAVIDWebService package's classes.
is.connected Methods to manipulate DAVID website
is.connected-method Methods to manipulate DAVID website

-- L --

listTotals Methods for 'DAVIDGODag' class object
listTotals-method Methods for 'DAVIDGODag' class object

-- M --

members Methods for 'DAVIDCluster' class object
members-method Methods for 'DAVIDCluster' class object
membership Methods for 'DAVIDFunctionalAnnotationTable' class object
membership-method Methods for 'DAVIDFunctionalAnnotationTable' class object
membership-methods Methods for 'DAVIDFunctionalAnnotationTable' class object

-- P --

percentages Methods for 'DAVIDGODag' class object
percentages-method Methods for 'DAVIDGODag' class object
plot2D Visualization of biological relationships
plot2D-method Visualization of biological relationships
plot2D-methods Visualization of biological relationships
popHits Methods for 'DAVIDGODag' class object
popHits-method Methods for 'DAVIDGODag' class object
popTotals Methods for 'DAVIDGODag' class object
popTotals-method Methods for 'DAVIDGODag' class object

-- S --

setAnnotationCategories Methods to manipulate DAVID website
setAnnotationCategories-method Methods to manipulate DAVID website
setCurrentBackgroundPosition Methods to manipulate DAVID website
setCurrentBackgroundPosition(position) Methods to manipulate DAVID website
setCurrentBackgroundPosition-method Methods to manipulate DAVID website
setCurrentGeneListPosition Methods to manipulate DAVID website
setCurrentGeneListPosition-method Methods to manipulate DAVID website
setCurrentSpecies Methods to manipulate DAVID website
setCurrentSpecies-method Methods to manipulate DAVID website
setEmail Accessor methods for 'DAVIDWebService' class
setEmail-method Accessor methods for 'DAVIDWebService' class
show Basic console output
show-method Basic console output
species Methods for 'DAVIDGenes' class object
species-method Methods for 'DAVIDGenes' class object
species-methods Methods for 'DAVIDGenes' class object
subset Methods for 'DAVIDFunctionalAnnotationTable' class object
subset-method Methods for 'DAVIDFunctionalAnnotationTable' class object
summary Basic summary for DAVIDWebService package classes.
summary-method Basic summary for DAVIDWebService package classes.

-- T --

termCluster1 DAVID's website gene/term cluster report example files
termCluster2 DAVID's website gene/term cluster report example files
terms Methods for 'DAVIDGODag' class object
terms-method Methods for 'DAVIDGODag' class object
type Getters for 'DAVIDResult' object
type-method Getters for 'DAVIDResult' object

-- U --

uniqueIds Methods for 'DAVIDGenes' class object
uniqueIds-method Methods for 'DAVIDGenes' class object
universeCounts Methods for 'DAVIDGODag' class object
universeCounts-method Methods for 'DAVIDGODag' class object
universeMappedCount Methods for 'DAVIDGODag' class object
universeMappedCount-method Methods for 'DAVIDGODag' class object
upsideDown Methods for 'DAVIDGODag' class object
upsideDown-method Methods for 'DAVIDGODag' class object